importer.log0000755000000000000000000751235611546407576000717602011-04-04 11:00:32,144 0 [ main] INFO ome.formats.importer.ImportConfig - OMERO Version: Beta4.2.1-r8614-Beta4.2-b41 2011-04-04 11:00:35,126 2982 [ main] WARN ome.system.UpgradeCheck - UPGRADE AVAILABLE:Please upgrade to Beta-4.2.2 See http://trac.openmicroscopy.org.uk/omero for the latest version 2011-04-04 11:00:35,152 3008 [ main] INFO ome.formats.importer.ImportConfig - Bioformats version: 4.2.1-DEV revision: 7178 date: 9 November 2010 2011-04-04 11:00:35,162 3018 [ main] DEBUG ome.formats.importer.ImportConfig - Loaded savedDirectory from User Preference Node: /ome/formats/importer 2011-04-04 11:00:35,163 3019 [ main] DEBUG ome.formats.importer.ImportConfig - Replacing port load value with default 2011-04-04 11:00:35,163 3019 [ main] DEBUG ome.formats.importer.ImportConfig - Loaded email from User Preference Node: /ome/formats/importer 2011-04-04 11:00:41,248 9104 [ Thread-6] INFO ome.formats.OMEROMetadataStoreClient - Attempting initial SSL connection to omepslid.compbio.cs.cmu.edu:4064 2011-04-04 11:00:43,288 11144 [ Thread-6] INFO ome.formats.OMEROMetadataStoreClient - Insecure connection requested, falling back 2011-04-04 11:00:43,542 11398 [ Thread-6] ERROR ome.formats.OMEROMetadataStoreClient - Can't modify the current group. 2011-04-04 11:00:44,149 12005 [ Thread-14] WARN e.formats.importer.gui.HistoryTableStore - History tables service Enabled. 2011-04-04 11:00:44,178 12034 [ Thread-6] ERROR ome.formats.OMEROMetadataStoreClient - Can't modify the current group. 2011-04-04 11:00:44,216 12072 [ Thread-14] DEBUG e.formats.importer.gui.HistoryTableStore - Using existing baseFile 2011-04-04 11:00:44,513 12369 [ Thread-6] INFO ome.formats.importer.gui.LoginHandler - Login successful! 2011-04-04 11:01:25,462 53318 [entQueue-0] INFO me.formats.importer.gui.FileQueueHandler - Scheduling candidate calculations(1)=[C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00001_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00002_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00003_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00004_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00005_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00006_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00007_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00008_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00009_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00010_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00011_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00012_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00013_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00014_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00015_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00016_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00017_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00018_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00019_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00020_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00021_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00022_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00023_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00024_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00025_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00001_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00002_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00003_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00004_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00005_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00006_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00007_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00008_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00009_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00010_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00011_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00012_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00013_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00014_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00015_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00016_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00017_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00018_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00019_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00020_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00021_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00022_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00023_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00024_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00025_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00001_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00002_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00003_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00004_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00005_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00006_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00007_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00008_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00009_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00010_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00011_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00012_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00013_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00014_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00015_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00016_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00017_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00018_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00019_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00020_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00021_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00022_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00023_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00024_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00025_Z_001.bmp] 2011-04-04 11:01:25,478 53334 [entQueue-0] INFO me.formats.importer.gui.FileQueueHandler - Handling import containers(1)=[C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00001_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00002_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00003_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00004_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00005_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00006_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00007_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00008_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00009_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00010_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00011_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00012_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00013_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00014_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00015_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00016_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00017_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00018_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00019_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00020_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00021_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00022_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00023_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00024_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00025_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00001_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00002_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00003_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00004_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00005_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00006_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00007_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00008_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00009_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00010_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00011_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00012_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00013_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00014_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00015_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00016_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00017_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00018_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00019_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00020_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00021_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00022_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00023_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00024_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00025_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00001_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00002_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00003_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00004_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00005_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00006_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00007_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00008_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00009_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00010_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00011_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00012_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00013_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00014_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00015_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00016_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00017_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00018_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00019_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00020_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00021_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00022_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00023_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00024_Z_001.bmp, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00025_Z_001.bmp] 2011-04-04 11:01:44,109 71965 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:01:53,918 81774 [2-thread-1] INFO ome.formats.importer.gui.ImportHandler - Background: Importing images 2011-04-04 11:01:53,936 81792 [2-thread-1] DEBUG ome.formats.importer.gui.ImportHandler - New importKey for history db is: 40 2011-04-04 11:01:54,690 82546 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:01:54,691 82547 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00001_Z_001.bmp 2011-04-04 11:01:54,762 82618 [2-thread-1] DEBUG loci.common.NIOByteBufferProvider - Using mapped byte buffer? false 2011-04-04 11:01:54,767 82623 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00001_Z_001.bmp) 2011-04-04 11:01:54,768 82624 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:01:54,776 82632 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:01:54,783 82639 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:01:54,812 82668 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:01:54,881 82737 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:01:54,899 82755 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:01:54,915 82771 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:01:54,917 82773 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:01:54,917 82773 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:01:56,020 83876 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:01:56,021 83877 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:01:56,021 83877 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:01:56,024 83880 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:01:56,126 83982 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:01:56,187 84043 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:01:56,187 84043 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:01:56,188 84044 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:01:56,188 84044 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:01:56,188 84044 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:01:56,188 84044 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:01:56,188 84044 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:01:56,189 84045 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:01:56,189 84045 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:01:56,189 84045 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:01:56,215 84071 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:01:56,228 84084 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:01:56,274 84130 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:01:56,277 84133 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:01:56,279 84135 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:01:56,279 84135 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:01:56,280 84136 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:01:56,280 84136 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:01:56,280 84136 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:01:56,280 84136 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:01:56,280 84136 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:01:56,281 84137 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:01:56,281 84137 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:01:56,281 84137 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:01:56,281 84137 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:01:56,282 84138 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:01:56,283 84139 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:01:56,284 84140 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00001_Z_001.bmp 2011-04-04 11:01:56,286 84142 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:01:56,305 84161 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:01:56,314 84170 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:01:56,329 84185 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:01:56,335 84191 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:01:56,336 84192 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:01:56,336 84192 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00001_Z_001.bmp 2011-04-04 11:01:56,337 84193 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:01:56,338 84194 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:01:56,338 84194 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:01:56,371 84227 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:01:56,378 84234 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:01:56,399 84255 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:01:56,400 84256 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:01:56,401 84257 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:01:56,412 84268 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:01:56,413 84269 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:01:56,414 84270 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:01:56,415 84271 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:01:56,416 84272 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@1662250,Image:0 2011-04-04 11:01:56,416 84272 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@130b13c,omero.model.OriginalFile:0 2011-04-04 11:01:56,417 84273 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@1aca5e2,Pixels:0 2011-04-04 11:01:56,417 84273 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@8518d4,Channel:0:0 2011-04-04 11:01:56,418 84274 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@933cba,omero.model.Channel:0:1 2011-04-04 11:01:56,419 84275 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@3e0339,omero.model.Channel:0:2 2011-04-04 11:01:56,420 84276 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@ca1ada,omero.model.FileAnnotation:0:0 2011-04-04 11:01:56,421 84277 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1bca486,omero.model.LogicalChannel:0:0 2011-04-04 11:01:56,422 84278 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@94a28e,omero.model.LogicalChannel:0:1 2011-04-04 11:01:56,422 84278 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@1cb4cae,omero.model.LogicalChannel:0:2 2011-04-04 11:01:56,424 84280 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:01:56,425 84281 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:01:56,425 84281 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:01:56,427 84283 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:01:56,427 84283 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:01:56,427 84283 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:01:56,556 84412 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7791 2011-04-04 11:01:56,557 84413 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:01:56,572 84428 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:01:57,112 84968 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:01:57,361 85217 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:01:57,613 85469 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:01:57,614 85470 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:01:58,054 85910 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:01:58,055 85911 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:01:58,323 86179 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:01:58,324 86180 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:01:58,329 86185 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:02:09,817 97673 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:02:09,818 97674 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00002_Z_001.bmp 2011-04-04 11:02:09,823 97679 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00002_Z_001.bmp) 2011-04-04 11:02:09,823 97679 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:02:09,836 97692 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:02:09,840 97696 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:02:09,841 97697 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:02:09,861 97717 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:02:09,861 97717 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:02:09,861 97717 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:02:09,862 97718 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:02:09,862 97718 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:02:09,862 97718 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:02:09,862 97718 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:02:09,863 97719 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:02:09,863 97719 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:02:09,863 97719 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:02:09,864 97720 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:02:09,898 97754 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:02:09,899 97755 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:02:09,902 97758 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:02:09,965 97821 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:02:09,965 97821 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:02:09,965 97821 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:02:09,965 97821 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:02:09,965 97821 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:02:09,966 97822 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:02:09,966 97822 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:02:09,967 97823 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:02:09,967 97823 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:02:09,967 97823 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:02:09,968 97824 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:02:09,976 97832 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:02:09,977 97833 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:02:09,977 97833 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00002_Z_001.bmp 2011-04-04 11:02:09,980 97836 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:02:10,030 97886 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:02:10,031 97887 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:02:10,032 97888 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:02:10,033 97889 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:02:10,033 97889 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:02:10,033 97889 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00002_Z_001.bmp 2011-04-04 11:02:10,035 97891 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:02:10,036 97892 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:02:10,037 97893 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:02:10,037 97893 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:02:10,038 97894 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:02:10,039 97895 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:02:10,039 97895 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:02:10,040 97896 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:02:10,040 97896 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:02:10,041 97897 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:02:10,041 97897 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:02:10,042 97898 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:02:10,042 97898 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@fae93e,Image:0 2011-04-04 11:02:10,042 97898 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@239f6,omero.model.OriginalFile:0 2011-04-04 11:02:10,043 97899 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@1c83354,Pixels:0 2011-04-04 11:02:10,043 97899 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@120a48c,Channel:0:0 2011-04-04 11:02:10,044 97900 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@d210ab,omero.model.Channel:0:1 2011-04-04 11:02:10,044 97900 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@1be3bb2,omero.model.Channel:0:2 2011-04-04 11:02:10,044 97900 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@1880b02,omero.model.FileAnnotation:0:0 2011-04-04 11:02:10,045 97901 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1bfeb82,omero.model.LogicalChannel:0:0 2011-04-04 11:02:10,045 97901 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@d3199e,omero.model.LogicalChannel:0:1 2011-04-04 11:02:10,046 97902 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@130c8e9,omero.model.LogicalChannel:0:2 2011-04-04 11:02:10,046 97902 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:02:10,047 97903 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:02:10,047 97903 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:02:10,047 97903 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:02:10,048 97904 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:02:10,048 97904 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:02:10,101 97957 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7792 2011-04-04 11:02:10,101 97957 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:02:10,108 97964 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:02:10,481 98337 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:02:10,736 98592 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:02:10,985 98841 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:02:10,986 98842 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:02:11,379 99235 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:02:11,380 99236 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:02:11,540 99396 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:02:11,541 99397 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:02:11,546 99402 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:02:23,288 111144 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:02:23,288 111144 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00003_Z_001.bmp 2011-04-04 11:02:23,313 111169 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00003_Z_001.bmp) 2011-04-04 11:02:23,313 111169 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:02:23,342 111198 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:02:23,346 111202 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:02:23,349 111205 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:02:23,370 111226 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:02:23,370 111226 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:02:23,370 111226 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:02:23,370 111226 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:02:23,370 111226 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:02:23,371 111227 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:02:23,371 111227 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:02:23,372 111228 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:02:23,374 111230 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:02:23,374 111230 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:02:23,375 111231 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:02:23,408 111264 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:02:23,409 111265 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:02:23,412 111268 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:02:23,439 111295 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:02:23,440 111296 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:02:23,440 111296 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:02:23,440 111296 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:02:23,440 111296 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:02:23,440 111296 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:02:23,440 111296 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:02:23,441 111297 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:02:23,441 111297 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:02:23,441 111297 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:02:23,441 111297 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:02:23,442 111298 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:02:23,461 111317 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:02:23,462 111318 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00003_Z_001.bmp 2011-04-04 11:02:23,463 111319 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:02:23,466 111322 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:02:23,484 111340 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:02:23,485 111341 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:02:23,485 111341 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:02:23,486 111342 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:02:23,486 111342 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00003_Z_001.bmp 2011-04-04 11:02:23,487 111343 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:02:23,487 111343 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:02:23,488 111344 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:02:23,488 111344 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:02:23,489 111345 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:02:23,489 111345 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:02:23,490 111346 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:02:23,491 111347 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:02:23,492 111348 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:02:23,493 111349 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:02:23,493 111349 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:02:23,493 111349 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:02:23,494 111350 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@10fba68,Image:0 2011-04-04 11:02:23,494 111350 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@f53870,omero.model.OriginalFile:0 2011-04-04 11:02:23,495 111351 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@1c1e333,Pixels:0 2011-04-04 11:02:23,495 111351 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@c27081,Channel:0:0 2011-04-04 11:02:23,496 111352 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@6a1fbe,omero.model.Channel:0:1 2011-04-04 11:02:23,496 111352 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@1589d3d,omero.model.Channel:0:2 2011-04-04 11:02:23,496 111352 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@1bfefb,omero.model.FileAnnotation:0:0 2011-04-04 11:02:23,497 111353 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@bed4c8,omero.model.LogicalChannel:0:0 2011-04-04 11:02:23,498 111354 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@1ab6c1c,omero.model.LogicalChannel:0:1 2011-04-04 11:02:23,499 111355 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@dd7786,omero.model.LogicalChannel:0:2 2011-04-04 11:02:23,522 111378 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:02:23,523 111379 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:02:23,524 111380 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:02:23,525 111381 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:02:23,525 111381 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:02:23,526 111382 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:02:23,577 111433 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7793 2011-04-04 11:02:23,578 111434 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:02:23,585 111441 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:02:23,944 111800 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:02:24,179 112035 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:02:24,432 112288 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:02:24,433 112289 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:02:24,826 112682 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:02:24,827 112683 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:02:24,982 112838 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:02:24,983 112839 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:02:24,988 112844 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:02:36,273 124129 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:02:36,274 124130 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00004_Z_001.bmp 2011-04-04 11:02:36,279 124135 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00004_Z_001.bmp) 2011-04-04 11:02:36,279 124135 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:02:36,286 124142 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:02:36,288 124144 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:02:36,289 124145 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:02:36,304 124160 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:02:36,304 124160 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:02:36,304 124160 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:02:36,304 124160 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:02:36,304 124160 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:02:36,304 124160 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:02:36,305 124161 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:02:36,305 124161 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:02:36,305 124161 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:02:36,305 124161 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:02:36,305 124161 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:02:36,327 124183 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:02:36,328 124184 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:02:36,330 124186 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:02:36,332 124188 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:02:36,332 124188 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:02:36,333 124189 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:02:36,333 124189 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:02:36,333 124189 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:02:36,333 124189 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:02:36,333 124189 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:02:36,334 124190 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:02:36,334 124190 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:02:36,334 124190 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:02:36,334 124190 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:02:36,355 124211 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:02:36,355 124211 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:02:36,356 124212 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00004_Z_001.bmp 2011-04-04 11:02:36,358 124214 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:02:36,361 124217 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:02:36,362 124218 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:02:36,363 124219 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:02:36,363 124219 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:02:36,364 124220 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:02:36,364 124220 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00004_Z_001.bmp 2011-04-04 11:02:36,364 124220 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:02:36,365 124221 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:02:36,365 124221 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:02:36,365 124221 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:02:36,366 124222 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:02:36,366 124222 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:02:36,368 124224 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:02:36,391 124247 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:02:36,391 124247 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:02:36,392 124248 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:02:36,392 124248 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:02:36,393 124249 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:02:36,394 124250 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@130c132,Image:0 2011-04-04 11:02:36,394 124250 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@9e7d46,omero.model.OriginalFile:0 2011-04-04 11:02:36,395 124251 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@cf5006,Pixels:0 2011-04-04 11:02:36,395 124251 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@ae4f8b,Channel:0:0 2011-04-04 11:02:36,397 124253 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@14b52aa,omero.model.Channel:0:1 2011-04-04 11:02:36,397 124253 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@dd20b6,omero.model.Channel:0:2 2011-04-04 11:02:36,398 124254 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@c7ecd5,omero.model.FileAnnotation:0:0 2011-04-04 11:02:36,398 124254 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@137fea,omero.model.LogicalChannel:0:0 2011-04-04 11:02:36,399 124255 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@1f49969,omero.model.LogicalChannel:0:1 2011-04-04 11:02:36,400 124256 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@11aa58b,omero.model.LogicalChannel:0:2 2011-04-04 11:02:36,401 124257 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:02:36,424 124280 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:02:36,425 124281 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:02:36,425 124281 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:02:36,425 124281 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:02:36,426 124282 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:02:36,478 124334 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7794 2011-04-04 11:02:36,479 124335 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:02:36,487 124343 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:02:36,856 124712 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:02:37,118 124974 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:02:37,352 125208 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:02:37,353 125209 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:02:37,764 125620 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:02:37,765 125621 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:02:37,951 125807 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:02:37,951 125807 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:02:37,957 125813 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:02:44,108 131964 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:02:49,438 137294 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:02:49,440 137296 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00005_Z_001.bmp 2011-04-04 11:02:49,445 137301 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00005_Z_001.bmp) 2011-04-04 11:02:49,445 137301 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:02:49,454 137310 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:02:49,457 137313 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:02:49,460 137316 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:02:49,502 137358 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:02:49,502 137358 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:02:49,502 137358 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:02:49,502 137358 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:02:49,502 137358 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:02:49,503 137359 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:02:49,503 137359 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:02:49,504 137360 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:02:49,504 137360 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:02:49,504 137360 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:02:49,504 137360 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:02:49,506 137362 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:02:49,549 137405 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:02:49,554 137410 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:02:49,556 137412 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:02:49,556 137412 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:02:49,557 137413 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:02:49,562 137418 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:02:49,562 137418 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:02:49,563 137419 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:02:49,563 137419 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:02:49,565 137421 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:02:49,565 137421 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:02:49,565 137421 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:02:49,565 137421 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:02:49,591 137447 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:02:49,592 137448 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:02:49,593 137449 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00005_Z_001.bmp 2011-04-04 11:02:49,595 137451 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:02:49,630 137486 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:02:49,664 137520 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:02:49,665 137521 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:02:49,665 137521 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:02:49,666 137522 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:02:49,673 137529 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00005_Z_001.bmp 2011-04-04 11:02:49,673 137529 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:02:49,677 137533 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:02:49,678 137534 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:02:49,679 137535 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:02:49,680 137536 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:02:49,683 137539 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:02:49,683 137539 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:02:49,685 137541 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:02:49,687 137543 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:02:49,688 137544 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:02:49,688 137544 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:02:49,688 137544 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:02:49,689 137545 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@1f53293,Image:0 2011-04-04 11:02:49,689 137545 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@4478fe,omero.model.OriginalFile:0 2011-04-04 11:02:49,690 137546 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@b55c7f,Pixels:0 2011-04-04 11:02:49,691 137547 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@354093,Channel:0:0 2011-04-04 11:02:49,691 137547 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@1fba2af,omero.model.Channel:0:1 2011-04-04 11:02:49,692 137548 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@aa4c7c,omero.model.Channel:0:2 2011-04-04 11:02:49,692 137548 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@13bedc4,omero.model.FileAnnotation:0:0 2011-04-04 11:02:49,693 137549 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1ec4535,omero.model.LogicalChannel:0:0 2011-04-04 11:02:49,693 137549 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@139ef3a,omero.model.LogicalChannel:0:1 2011-04-04 11:02:49,698 137554 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@47108e,omero.model.LogicalChannel:0:2 2011-04-04 11:02:49,698 137554 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:02:49,700 137556 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:02:49,700 137556 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:02:49,701 137557 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:02:49,702 137558 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:02:49,702 137558 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:02:49,755 137611 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7795 2011-04-04 11:02:49,756 137612 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:02:49,763 137619 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:02:50,174 138030 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:02:50,431 138287 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:02:50,685 138541 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:02:50,688 138544 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:02:51,094 138950 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:02:51,094 138950 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:02:51,259 139115 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:02:51,269 139125 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:02:51,276 139132 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:03:02,671 150527 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:03:02,672 150528 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00006_Z_001.bmp 2011-04-04 11:03:02,681 150537 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00006_Z_001.bmp) 2011-04-04 11:03:02,681 150537 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:03:02,737 150593 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:03:02,742 150598 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:03:02,743 150599 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:03:02,786 150642 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:03:02,786 150642 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:03:02,787 150643 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:03:02,787 150643 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:03:02,787 150643 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:03:02,788 150644 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:03:02,788 150644 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:03:02,789 150645 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:03:02,789 150645 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:03:02,789 150645 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:03:02,789 150645 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:03:02,793 150649 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:03:02,795 150651 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:03:02,828 150684 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:03:02,830 150686 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:03:02,830 150686 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:03:02,830 150686 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:03:02,830 150686 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:03:02,830 150686 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:03:02,831 150687 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:03:02,831 150687 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:03:02,832 150688 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:03:02,832 150688 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:03:02,832 150688 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:03:02,832 150688 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:03:02,860 150716 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:03:02,861 150717 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:03:02,861 150717 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00006_Z_001.bmp 2011-04-04 11:03:02,865 150721 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:03:02,870 150726 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:03:02,898 150754 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:03:02,898 150754 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:03:02,899 150755 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:03:02,899 150755 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:03:02,899 150755 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00006_Z_001.bmp 2011-04-04 11:03:02,902 150758 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:03:02,902 150758 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:03:02,903 150759 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:03:02,905 150761 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:03:02,906 150762 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:03:02,908 150764 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:03:02,908 150764 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:03:02,909 150765 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:03:02,909 150765 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:03:02,910 150766 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:03:02,910 150766 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:03:02,911 150767 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:03:02,912 150768 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@d4a1d3,Image:0 2011-04-04 11:03:02,915 150771 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@1611aec,omero.model.OriginalFile:0 2011-04-04 11:03:02,918 150774 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@220711,Pixels:0 2011-04-04 11:03:02,919 150775 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@11f2041,Channel:0:0 2011-04-04 11:03:02,919 150775 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@32a325,omero.model.Channel:0:1 2011-04-04 11:03:02,920 150776 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@6da8eb,omero.model.Channel:0:2 2011-04-04 11:03:02,921 150777 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@10e468f,omero.model.FileAnnotation:0:0 2011-04-04 11:03:02,922 150778 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@c8d62f,omero.model.LogicalChannel:0:0 2011-04-04 11:03:02,924 150780 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@18297fe,omero.model.LogicalChannel:0:1 2011-04-04 11:03:02,924 150780 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@1459c6f,omero.model.LogicalChannel:0:2 2011-04-04 11:03:02,958 150814 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:03:02,959 150815 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:03:02,960 150816 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:03:02,960 150816 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:03:02,960 150816 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:03:02,961 150817 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:03:03,029 150885 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7796 2011-04-04 11:03:03,034 150890 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:03:03,040 150896 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:03:03,400 151256 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:03:03,643 151499 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:03:03,885 151741 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:03:03,886 151742 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:03:04,288 152144 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:03:04,289 152145 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:03:04,446 152302 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:03:04,446 152302 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:03:04,450 152306 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:03:16,290 164146 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:03:16,291 164147 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00007_Z_001.bmp 2011-04-04 11:03:16,296 164152 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00007_Z_001.bmp) 2011-04-04 11:03:16,296 164152 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:03:16,522 164378 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:03:16,525 164381 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:03:16,526 164382 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:03:16,549 164405 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:03:16,549 164405 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:03:16,549 164405 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:03:16,549 164405 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:03:16,549 164405 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:03:16,550 164406 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:03:16,550 164406 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:03:16,550 164406 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:03:16,550 164406 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:03:16,550 164406 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:03:16,551 164407 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:03:16,583 164439 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:03:16,584 164440 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:03:16,587 164443 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:03:16,622 164478 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:03:16,622 164478 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:03:16,623 164479 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:03:16,623 164479 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:03:16,623 164479 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:03:16,623 164479 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:03:16,623 164479 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:03:16,624 164480 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:03:16,624 164480 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:03:16,624 164480 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:03:16,624 164480 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:03:16,656 164512 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:03:16,656 164512 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:03:16,657 164513 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00007_Z_001.bmp 2011-04-04 11:03:16,658 164514 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:03:16,661 164517 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:03:16,662 164518 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:03:16,662 164518 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:03:16,663 164519 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:03:16,667 164523 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:03:16,667 164523 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00007_Z_001.bmp 2011-04-04 11:03:16,667 164523 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:03:16,667 164523 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:03:16,668 164524 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:03:16,668 164524 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:03:16,669 164525 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:03:16,704 164560 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:03:16,705 164561 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:03:16,705 164561 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:03:16,707 164563 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:03:16,707 164563 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:03:16,710 164566 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:03:16,710 164566 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:03:16,711 164567 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@1a06ec2,Image:0 2011-04-04 11:03:16,711 164567 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@c524dd,omero.model.OriginalFile:0 2011-04-04 11:03:16,711 164567 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@a0560e,Pixels:0 2011-04-04 11:03:16,745 164601 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@1f5205c,Channel:0:0 2011-04-04 11:03:16,746 164602 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@76fb1b,omero.model.Channel:0:1 2011-04-04 11:03:16,746 164602 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@13638d4,omero.model.Channel:0:2 2011-04-04 11:03:16,747 164603 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@14b2263,omero.model.FileAnnotation:0:0 2011-04-04 11:03:16,749 164605 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@d5163a,omero.model.LogicalChannel:0:0 2011-04-04 11:03:16,750 164606 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@11f1d25,omero.model.LogicalChannel:0:1 2011-04-04 11:03:16,751 164607 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@56b64c,omero.model.LogicalChannel:0:2 2011-04-04 11:03:16,751 164607 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:03:16,751 164607 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:03:16,752 164608 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:03:16,752 164608 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:03:16,752 164608 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:03:16,753 164609 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:03:16,804 164660 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7797 2011-04-04 11:03:16,805 164661 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:03:16,814 164670 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:03:17,168 165024 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:03:17,431 165287 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:03:17,674 165530 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:03:17,675 165531 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:03:18,089 165945 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:03:18,090 165946 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:03:18,249 166105 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:03:18,250 166106 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:03:18,255 166111 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:03:30,318 178174 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:03:30,319 178175 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00008_Z_001.bmp 2011-04-04 11:03:30,332 178188 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00008_Z_001.bmp) 2011-04-04 11:03:30,333 178189 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:03:30,401 178257 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:03:30,404 178260 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:03:30,406 178262 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:03:30,454 178310 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:03:30,455 178311 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:03:30,455 178311 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:03:30,455 178311 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:03:30,455 178311 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:03:30,456 178312 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:03:30,456 178312 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:03:30,456 178312 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:03:30,456 178312 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:03:30,456 178312 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:03:30,457 178313 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:03:30,500 178356 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:03:30,501 178357 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:03:30,504 178360 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:03:30,505 178361 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:03:30,505 178361 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:03:30,506 178362 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:03:30,506 178362 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:03:30,507 178363 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:03:30,507 178363 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:03:30,507 178363 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:03:30,508 178364 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:03:30,508 178364 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:03:30,508 178364 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:03:30,508 178364 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:03:30,509 178365 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:03:30,510 178366 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:03:30,512 178368 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00008_Z_001.bmp 2011-04-04 11:03:30,515 178371 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:03:30,519 178375 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:03:30,521 178377 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:03:30,522 178378 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:03:30,522 178378 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:03:30,522 178378 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:03:30,522 178378 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00008_Z_001.bmp 2011-04-04 11:03:30,523 178379 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:03:30,523 178379 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:03:30,523 178379 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:03:30,524 178380 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:03:30,524 178380 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:03:30,560 178416 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:03:30,561 178417 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:03:30,561 178417 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:03:30,562 178418 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:03:30,602 178458 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:03:30,602 178458 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:03:30,602 178458 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:03:30,603 178459 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@1423820,Image:0 2011-04-04 11:03:30,603 178459 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@18b5a73,omero.model.OriginalFile:0 2011-04-04 11:03:30,603 178459 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@7cb66a,Pixels:0 2011-04-04 11:03:30,604 178460 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@2465e5,Channel:0:0 2011-04-04 11:03:30,604 178460 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@b103dd,omero.model.Channel:0:1 2011-04-04 11:03:30,604 178460 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@13e02ed,omero.model.Channel:0:2 2011-04-04 11:03:30,605 178461 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@1bdcbb2,omero.model.FileAnnotation:0:0 2011-04-04 11:03:30,606 178462 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@5f387c,omero.model.LogicalChannel:0:0 2011-04-04 11:03:30,607 178463 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@752144,omero.model.LogicalChannel:0:1 2011-04-04 11:03:30,607 178463 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@20a52f,omero.model.LogicalChannel:0:2 2011-04-04 11:03:30,607 178463 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:03:30,608 178464 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:03:30,609 178465 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:03:30,609 178465 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:03:30,609 178465 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:03:30,610 178466 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:03:30,667 178523 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7798 2011-04-04 11:03:30,690 178546 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:03:30,700 178556 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:03:31,060 178916 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:03:31,310 179166 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:03:31,543 179399 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:03:31,543 179399 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:03:31,949 179805 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:03:31,950 179806 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:03:32,107 179963 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:03:32,108 179964 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:03:32,113 179969 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:03:44,040 191896 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:03:44,041 191897 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00009_Z_001.bmp 2011-04-04 11:03:44,049 191905 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00009_Z_001.bmp) 2011-04-04 11:03:44,049 191905 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:03:44,078 191934 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:03:44,082 191938 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:03:44,083 191939 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:03:44,107 191963 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:03:44,152 192008 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:03:44,154 192010 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:03:44,154 192010 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:03:44,154 192010 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:03:44,154 192010 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:03:44,155 192011 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:03:44,155 192011 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:03:44,156 192012 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:03:44,156 192012 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:03:44,156 192012 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:03:44,157 192013 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:03:44,201 192057 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:03:44,201 192057 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:03:44,203 192059 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:03:44,206 192062 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:03:44,206 192062 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:03:44,206 192062 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:03:44,206 192062 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:03:44,206 192062 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:03:44,207 192063 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:03:44,207 192063 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:03:44,207 192063 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:03:44,207 192063 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:03:44,208 192064 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:03:44,208 192064 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:03:44,238 192094 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:03:44,239 192095 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:03:44,240 192096 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00009_Z_001.bmp 2011-04-04 11:03:44,241 192097 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:03:44,245 192101 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:03:44,278 192134 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:03:44,279 192135 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:03:44,279 192135 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:03:44,280 192136 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:03:44,280 192136 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00009_Z_001.bmp 2011-04-04 11:03:44,280 192136 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:03:44,281 192137 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:03:44,281 192137 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:03:44,281 192137 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:03:44,284 192140 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:03:44,317 192173 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:03:44,318 192174 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:03:44,318 192174 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:03:44,319 192175 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:03:44,320 192176 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:03:44,320 192176 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:03:44,322 192178 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:03:44,322 192178 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@14510ac,Image:0 2011-04-04 11:03:44,322 192178 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@1c8c58,omero.model.OriginalFile:0 2011-04-04 11:03:44,323 192179 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@8f5944,Pixels:0 2011-04-04 11:03:44,324 192180 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@67a232,Channel:0:0 2011-04-04 11:03:44,324 192180 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@10d78ec,omero.model.Channel:0:1 2011-04-04 11:03:44,325 192181 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@3b9a5f,omero.model.Channel:0:2 2011-04-04 11:03:44,325 192181 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@12929b2,omero.model.FileAnnotation:0:0 2011-04-04 11:03:44,325 192181 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@17667bd,omero.model.LogicalChannel:0:0 2011-04-04 11:03:44,326 192182 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@ad9f5d,omero.model.LogicalChannel:0:1 2011-04-04 11:03:44,326 192182 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@47c130,omero.model.LogicalChannel:0:2 2011-04-04 11:03:44,326 192182 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:03:44,326 192182 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:03:44,328 192184 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:03:44,328 192184 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:03:44,329 192185 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:03:44,330 192186 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:03:44,383 192239 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7799 2011-04-04 11:03:44,383 192239 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:03:44,393 192249 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:03:44,736 192592 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:03:44,984 192840 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:03:45,214 193070 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:03:45,214 193070 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:03:45,608 193464 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:03:45,609 193465 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:03:45,782 193638 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:03:45,783 193639 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:03:45,792 193648 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:03:57,263 205119 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:03:57,264 205120 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00010_Z_001.bmp 2011-04-04 11:03:57,273 205129 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00010_Z_001.bmp) 2011-04-04 11:03:57,273 205129 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:03:57,285 205141 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:03:57,288 205144 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:03:57,289 205145 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:03:57,346 205202 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:03:57,346 205202 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:03:57,347 205203 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:03:57,347 205203 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:03:57,347 205203 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:03:57,347 205203 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:03:57,348 205204 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:03:57,348 205204 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:03:57,348 205204 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:03:57,348 205204 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:03:57,349 205205 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:03:57,349 205205 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:03:57,351 205207 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:03:57,359 205215 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:03:57,411 205267 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:03:57,412 205268 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:03:57,412 205268 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:03:57,412 205268 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:03:57,412 205268 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:03:57,412 205268 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:03:57,412 205268 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:03:57,413 205269 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:03:57,413 205269 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:03:57,413 205269 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:03:57,413 205269 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:03:57,445 205301 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:03:57,446 205302 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:03:57,447 205303 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00010_Z_001.bmp 2011-04-04 11:03:57,453 205309 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:03:57,457 205313 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:03:57,490 205346 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:03:57,491 205347 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:03:57,492 205348 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:03:57,493 205349 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:03:57,503 205359 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00010_Z_001.bmp 2011-04-04 11:03:57,504 205360 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:03:57,505 205361 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:03:57,506 205362 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:03:57,507 205363 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:03:57,511 205367 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:03:57,512 205368 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:03:57,512 205368 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:03:57,513 205369 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:03:57,514 205370 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:03:57,551 205407 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:03:57,552 205408 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:03:57,553 205409 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:03:57,554 205410 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@686cea,Image:0 2011-04-04 11:03:57,555 205411 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@b245dc,omero.model.OriginalFile:0 2011-04-04 11:03:57,562 205418 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@f7cbd1,Pixels:0 2011-04-04 11:03:57,563 205419 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@1f9aeda,Channel:0:0 2011-04-04 11:03:57,564 205420 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@437dcb,omero.model.Channel:0:1 2011-04-04 11:03:57,565 205421 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@64f6fe,omero.model.Channel:0:2 2011-04-04 11:03:57,566 205422 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@1a5e4e4,omero.model.FileAnnotation:0:0 2011-04-04 11:03:57,566 205422 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1af0fcf,omero.model.LogicalChannel:0:0 2011-04-04 11:03:57,570 205426 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@538b31,omero.model.LogicalChannel:0:1 2011-04-04 11:03:57,571 205427 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@14a1ab7,omero.model.LogicalChannel:0:2 2011-04-04 11:03:57,610 205466 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:03:57,613 205469 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:03:57,649 205505 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:03:57,654 205510 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:03:57,655 205511 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:03:57,656 205512 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:03:57,708 205564 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7800 2011-04-04 11:03:57,709 205565 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:03:57,719 205575 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:03:58,065 205921 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:03:58,298 206154 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:03:58,527 206383 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:03:58,528 206384 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:03:58,937 206793 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:03:58,938 206794 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:03:59,111 206967 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:03:59,113 206969 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:03:59,122 206978 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:04:11,084 218940 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:04:11,085 218941 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00011_Z_001.bmp 2011-04-04 11:04:11,091 218947 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00011_Z_001.bmp) 2011-04-04 11:04:11,091 218947 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:04:11,102 218958 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:04:11,105 218961 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:04:11,106 218962 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:04:11,109 218965 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:04:11,110 218966 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:04:11,110 218966 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:04:11,110 218966 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:04:11,110 218966 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:04:11,111 218967 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:04:11,111 218967 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:04:11,111 218967 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:04:11,111 218967 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:04:11,112 218968 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:04:11,112 218968 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:04:11,160 219016 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:04:11,161 219017 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:04:11,164 219020 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:04:11,168 219024 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:04:11,168 219024 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:04:11,168 219024 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:04:11,168 219024 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:04:11,168 219024 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:04:11,169 219025 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:04:11,169 219025 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:04:11,170 219026 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:04:11,170 219026 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:04:11,170 219026 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:04:11,170 219026 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:04:11,173 219029 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:04:11,183 219039 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:04:11,184 219040 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00011_Z_001.bmp 2011-04-04 11:04:11,186 219042 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:04:11,193 219049 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:04:11,197 219053 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:04:11,198 219054 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:04:11,198 219054 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:04:11,199 219055 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:04:11,199 219055 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00011_Z_001.bmp 2011-04-04 11:04:11,200 219056 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:04:11,201 219057 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:04:11,241 219097 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:04:11,242 219098 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:04:11,243 219099 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:04:11,244 219100 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:04:11,245 219101 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:04:11,246 219102 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:04:11,250 219106 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:04:11,251 219107 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:04:11,255 219111 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:04:11,259 219115 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:04:11,263 219119 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@656758,Image:0 2011-04-04 11:04:11,272 219128 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@197f158,omero.model.OriginalFile:0 2011-04-04 11:04:11,273 219129 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@1a5f7d3,Pixels:0 2011-04-04 11:04:11,277 219133 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@132c515,Channel:0:0 2011-04-04 11:04:11,281 219137 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@1e41869,omero.model.Channel:0:1 2011-04-04 11:04:11,285 219141 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@1556f4c,omero.model.Channel:0:2 2011-04-04 11:04:11,289 219145 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@c50561,omero.model.FileAnnotation:0:0 2011-04-04 11:04:11,293 219149 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1eef1eb,omero.model.LogicalChannel:0:0 2011-04-04 11:04:11,298 219154 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@19bdb65,omero.model.LogicalChannel:0:1 2011-04-04 11:04:11,302 219158 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@1046822,omero.model.LogicalChannel:0:2 2011-04-04 11:04:11,305 219161 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:04:11,309 219165 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:04:11,313 219169 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:04:11,319 219175 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:04:11,320 219176 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:04:11,324 219180 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:04:11,386 219242 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7801 2011-04-04 11:04:11,387 219243 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:04:11,398 219254 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:04:11,735 219591 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:04:11,975 219831 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:04:12,218 220074 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:04:12,224 220080 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:04:12,615 220471 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:04:12,616 220472 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:04:12,788 220644 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:04:12,789 220645 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:04:12,797 220653 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:04:24,242 232098 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:04:24,243 232099 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00012_Z_001.bmp 2011-04-04 11:04:24,253 232109 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00012_Z_001.bmp) 2011-04-04 11:04:24,253 232109 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:04:24,263 232119 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:04:24,266 232122 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:04:24,267 232123 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:04:24,269 232125 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:04:24,269 232125 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:04:24,269 232125 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:04:24,269 232125 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:04:24,270 232126 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:04:24,270 232126 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:04:24,270 232126 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:04:24,271 232127 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:04:24,271 232127 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:04:24,271 232127 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:04:24,271 232127 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:04:24,305 232161 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:04:24,306 232162 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:04:24,310 232166 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:04:24,311 232167 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:04:24,312 232168 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:04:24,312 232168 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:04:24,312 232168 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:04:24,312 232168 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:04:24,313 232169 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:04:24,313 232169 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:04:24,313 232169 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:04:24,313 232169 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:04:24,313 232169 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:04:24,314 232170 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:04:24,315 232171 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:04:24,320 232176 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:04:24,330 232186 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00012_Z_001.bmp 2011-04-04 11:04:24,335 232191 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:04:24,341 232197 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:04:24,345 232201 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:04:24,345 232201 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:04:24,347 232203 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:04:24,347 232203 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:04:24,348 232204 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00012_Z_001.bmp 2011-04-04 11:04:24,348 232204 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:04:24,349 232205 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:04:24,379 232235 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:04:24,380 232236 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:04:24,381 232237 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:04:24,381 232237 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:04:24,382 232238 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:04:24,384 232240 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:04:24,385 232241 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:04:24,386 232242 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:04:24,387 232243 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:04:24,387 232243 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:04:24,392 232248 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@1444986,Image:0 2011-04-04 11:04:24,392 232248 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@1e91259,omero.model.OriginalFile:0 2011-04-04 11:04:24,393 232249 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@2cf63,Pixels:0 2011-04-04 11:04:24,425 232281 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@1a6fb3e,Channel:0:0 2011-04-04 11:04:24,426 232282 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@18787fd,omero.model.Channel:0:1 2011-04-04 11:04:24,427 232283 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@1e1153a,omero.model.Channel:0:2 2011-04-04 11:04:24,428 232284 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@ccbab7,omero.model.FileAnnotation:0:0 2011-04-04 11:04:24,434 232290 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1e7ce87,omero.model.LogicalChannel:0:0 2011-04-04 11:04:24,435 232291 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@465863,omero.model.LogicalChannel:0:1 2011-04-04 11:04:24,439 232295 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@10ae3fb,omero.model.LogicalChannel:0:2 2011-04-04 11:04:24,444 232300 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:04:24,452 232308 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:04:24,452 232308 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:04:24,457 232313 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:04:24,461 232317 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:04:24,466 232322 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:04:24,517 232373 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7802 2011-04-04 11:04:24,518 232374 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:04:24,528 232384 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:04:24,871 232727 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:04:25,104 232960 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:04:25,332 233188 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:04:25,333 233189 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:04:25,757 233613 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:04:25,758 233614 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:04:25,918 233774 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:04:25,919 233775 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:04:25,930 233786 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:04:37,269 245125 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:04:37,270 245126 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00013_Z_001.bmp 2011-04-04 11:04:37,276 245132 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00013_Z_001.bmp) 2011-04-04 11:04:37,276 245132 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:04:37,285 245141 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:04:37,287 245143 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:04:37,287 245143 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:04:37,289 245145 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:04:37,289 245145 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:04:37,289 245145 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:04:37,289 245145 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:04:37,289 245145 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:04:37,289 245145 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:04:37,289 245145 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:04:37,290 245146 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:04:37,290 245146 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:04:37,290 245146 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:04:37,290 245146 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:04:37,291 245147 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:04:37,291 245147 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:04:37,294 245150 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:04:37,320 245176 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:04:37,320 245176 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:04:37,320 245176 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:04:37,320 245176 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:04:37,320 245176 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:04:37,321 245177 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:04:37,321 245177 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:04:37,321 245177 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:04:37,321 245177 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:04:37,321 245177 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:04:37,322 245178 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:04:37,322 245178 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:04:37,323 245179 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:04:37,324 245180 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00013_Z_001.bmp 2011-04-04 11:04:37,328 245184 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:04:37,331 245187 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:04:37,337 245193 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:04:37,338 245194 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:04:37,338 245194 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:04:37,339 245195 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:04:37,344 245200 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00013_Z_001.bmp 2011-04-04 11:04:37,344 245200 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:04:37,345 245201 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:04:37,346 245202 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:04:37,347 245203 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:04:37,347 245203 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:04:37,348 245204 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:04:37,349 245205 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:04:37,380 245236 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:04:37,383 245239 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:04:37,384 245240 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:04:37,385 245241 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:04:37,386 245242 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:04:37,387 245243 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@d4b473,Image:0 2011-04-04 11:04:37,392 245248 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@27f394,omero.model.OriginalFile:0 2011-04-04 11:04:37,394 245250 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@1cc0a0f,Pixels:0 2011-04-04 11:04:37,396 245252 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@7ccf6,Channel:0:0 2011-04-04 11:04:37,397 245253 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@e5376a,omero.model.Channel:0:1 2011-04-04 11:04:37,402 245258 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@1da931b,omero.model.Channel:0:2 2011-04-04 11:04:37,403 245259 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@2b2c81,omero.model.FileAnnotation:0:0 2011-04-04 11:04:37,408 245264 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@e6235d,omero.model.LogicalChannel:0:0 2011-04-04 11:04:37,409 245265 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@780af5,omero.model.LogicalChannel:0:1 2011-04-04 11:04:37,414 245270 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@132a4df,omero.model.LogicalChannel:0:2 2011-04-04 11:04:37,418 245274 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:04:37,423 245279 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:04:37,434 245290 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:04:37,434 245290 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:04:37,435 245291 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:04:37,435 245291 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:04:37,494 245350 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7803 2011-04-04 11:04:37,495 245351 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:04:37,502 245358 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:04:37,881 245737 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:04:38,123 245979 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:04:38,378 246234 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:04:38,379 246235 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:04:38,762 246618 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:04:38,762 246618 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:04:38,943 246799 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:04:38,944 246800 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:04:38,953 246809 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:04:44,152 252008 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:04:50,358 258214 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:04:50,362 258218 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00014_Z_001.bmp 2011-04-04 11:04:50,368 258224 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00014_Z_001.bmp) 2011-04-04 11:04:50,369 258225 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:04:50,377 258233 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:04:50,378 258234 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:04:50,379 258235 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:04:50,382 258238 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:04:50,382 258238 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:04:50,382 258238 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:04:50,382 258238 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:04:50,382 258238 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:04:50,384 258240 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:04:50,384 258240 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:04:50,385 258241 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:04:50,385 258241 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:04:50,385 258241 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:04:50,385 258241 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:04:50,411 258267 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:04:50,412 258268 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:04:50,414 258270 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:04:50,417 258273 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:04:50,417 258273 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:04:50,417 258273 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:04:50,417 258273 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:04:50,417 258273 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:04:50,417 258273 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:04:50,417 258273 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:04:50,418 258274 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:04:50,418 258274 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:04:50,418 258274 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:04:50,418 258274 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:04:50,426 258282 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:04:50,427 258283 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:04:50,433 258289 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00014_Z_001.bmp 2011-04-04 11:04:50,444 258300 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:04:50,448 258304 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:04:50,453 258309 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:04:50,454 258310 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:04:50,455 258311 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:04:50,456 258312 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:04:50,457 258313 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00014_Z_001.bmp 2011-04-04 11:04:50,458 258314 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:04:50,458 258314 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:04:50,465 258321 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:04:50,466 258322 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:04:50,467 258323 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:04:50,468 258324 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:04:50,468 258324 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:04:50,469 258325 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:04:50,470 258326 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:04:50,471 258327 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:04:50,510 258366 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:04:50,512 258368 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:04:50,513 258369 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@1905742,Image:0 2011-04-04 11:04:50,513 258369 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@6f513,omero.model.OriginalFile:0 2011-04-04 11:04:50,515 258371 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@10285d8,Pixels:0 2011-04-04 11:04:50,516 258372 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@19a19fd,Channel:0:0 2011-04-04 11:04:50,517 258373 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@f9aa66,omero.model.Channel:0:1 2011-04-04 11:04:50,518 258374 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@8edb84,omero.model.Channel:0:2 2011-04-04 11:04:50,519 258375 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@1a2264c,omero.model.FileAnnotation:0:0 2011-04-04 11:04:50,520 258376 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@98f805,omero.model.LogicalChannel:0:0 2011-04-04 11:04:50,525 258381 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@b749a5,omero.model.LogicalChannel:0:1 2011-04-04 11:04:50,525 258381 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@4e68fb,omero.model.LogicalChannel:0:2 2011-04-04 11:04:50,562 258418 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:04:50,564 258420 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:04:50,565 258421 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:04:50,567 258423 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:04:50,568 258424 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:04:50,569 258425 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:04:50,633 258489 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7804 2011-04-04 11:04:50,633 258489 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:04:50,643 258499 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:04:51,026 258882 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:04:51,281 259137 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:04:51,519 259375 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:04:51,520 259376 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:04:51,924 259780 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:04:51,926 259782 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:04:52,103 259959 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:04:52,105 259961 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:04:52,122 259978 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:05:03,457 271313 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:05:03,458 271314 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00015_Z_001.bmp 2011-04-04 11:05:03,469 271325 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00015_Z_001.bmp) 2011-04-04 11:05:03,470 271326 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:05:03,479 271335 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:05:03,482 271338 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:05:03,483 271339 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:05:03,485 271341 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:05:03,485 271341 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:05:03,485 271341 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:05:03,485 271341 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:05:03,486 271342 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:05:03,486 271342 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:05:03,486 271342 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:05:03,487 271343 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:05:03,487 271343 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:05:03,487 271343 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:05:03,488 271344 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:05:03,489 271345 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:05:03,530 271386 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:05:03,533 271389 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:05:03,537 271393 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:05:03,538 271394 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:05:03,538 271394 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:05:03,538 271394 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:05:03,538 271394 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:05:03,538 271394 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:05:03,538 271394 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:05:03,539 271395 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:05:03,539 271395 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:05:03,539 271395 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:05:03,539 271395 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:05:03,546 271402 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:05:03,547 271403 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:05:03,552 271408 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00015_Z_001.bmp 2011-04-04 11:05:03,557 271413 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:05:03,563 271419 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:05:03,568 271424 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:05:03,569 271425 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:05:03,570 271426 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:05:03,571 271427 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:05:03,572 271428 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00015_Z_001.bmp 2011-04-04 11:05:03,572 271428 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:05:03,573 271429 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:05:03,573 271429 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:05:03,604 271460 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:05:03,606 271462 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:05:03,607 271463 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:05:03,612 271468 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:05:03,648 271504 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:05:03,656 271512 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:05:03,657 271513 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:05:03,661 271517 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:05:03,666 271522 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:05:03,671 271527 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@5284e9,Image:0 2011-04-04 11:05:03,676 271532 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@12fa617,omero.model.OriginalFile:0 2011-04-04 11:05:03,688 271544 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@71cb25,Pixels:0 2011-04-04 11:05:03,689 271545 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@c510e3,Channel:0:0 2011-04-04 11:05:03,694 271550 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@ba8af9,omero.model.Channel:0:1 2011-04-04 11:05:03,698 271554 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@13c339f,omero.model.Channel:0:2 2011-04-04 11:05:03,703 271559 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@105e560,omero.model.FileAnnotation:0:0 2011-04-04 11:05:03,708 271564 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@136ab79,omero.model.LogicalChannel:0:0 2011-04-04 11:05:03,713 271569 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@1efa3e7,omero.model.LogicalChannel:0:1 2011-04-04 11:05:03,718 271574 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@18eef25,omero.model.LogicalChannel:0:2 2011-04-04 11:05:03,723 271579 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:05:03,763 271619 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:05:03,763 271619 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:05:03,763 271619 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:05:03,763 271619 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:05:03,763 271619 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:05:03,980 271836 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7805 2011-04-04 11:05:03,982 271838 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:05:03,993 271849 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:05:04,366 272222 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:05:04,607 272463 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:05:04,845 272701 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:05:04,846 272702 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:05:05,245 273101 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:05:05,246 273102 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:05:05,406 273262 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:05:05,407 273263 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:05:05,418 273274 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:05:17,259 285115 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:05:17,260 285116 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00016_Z_001.bmp 2011-04-04 11:05:17,270 285126 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00016_Z_001.bmp) 2011-04-04 11:05:17,271 285127 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:05:17,281 285137 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:05:17,284 285140 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:05:17,285 285141 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:05:17,287 285143 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:05:17,288 285144 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:05:17,288 285144 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:05:17,288 285144 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:05:17,288 285144 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:05:17,289 285145 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:05:17,289 285145 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:05:17,289 285145 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:05:17,289 285145 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:05:17,289 285145 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:05:17,307 285163 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:05:17,348 285204 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:05:17,348 285204 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:05:17,348 285204 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:05:17,348 285204 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:05:17,348 285204 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:05:17,348 285204 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:05:17,348 285204 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:05:17,348 285204 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:05:17,348 285204 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:05:17,348 285204 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:05:17,348 285204 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:05:17,348 285204 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:05:17,348 285204 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:05:17,348 285204 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:05:17,353 285209 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:05:17,356 285212 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:05:17,357 285213 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00016_Z_001.bmp 2011-04-04 11:05:17,374 285230 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:05:17,380 285236 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:05:17,419 285275 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:05:17,422 285278 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:05:17,423 285279 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:05:17,425 285281 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:05:17,425 285281 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00016_Z_001.bmp 2011-04-04 11:05:17,426 285282 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:05:17,427 285283 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:05:17,427 285283 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:05:17,432 285288 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:05:17,432 285288 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:05:17,433 285289 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:05:17,434 285290 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:05:17,434 285290 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:05:17,435 285291 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:05:17,436 285292 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:05:17,436 285292 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:05:17,463 285319 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:05:17,465 285321 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@36d036,Image:0 2011-04-04 11:05:17,466 285322 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@8523a0,omero.model.OriginalFile:0 2011-04-04 11:05:17,467 285323 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@1f68d7c,Pixels:0 2011-04-04 11:05:17,467 285323 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@635421,Channel:0:0 2011-04-04 11:05:17,468 285324 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@192974,omero.model.Channel:0:1 2011-04-04 11:05:17,469 285325 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@144c5bb,omero.model.Channel:0:2 2011-04-04 11:05:17,473 285329 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@13cca0e,omero.model.FileAnnotation:0:0 2011-04-04 11:05:17,474 285330 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1066caf,omero.model.LogicalChannel:0:0 2011-04-04 11:05:17,474 285330 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@1c68b6f,omero.model.LogicalChannel:0:1 2011-04-04 11:05:17,475 285331 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@c7f06,omero.model.LogicalChannel:0:2 2011-04-04 11:05:17,476 285332 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:05:17,477 285333 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:05:17,477 285333 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:05:17,478 285334 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:05:17,479 285335 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:05:17,479 285335 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:05:17,538 285394 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7806 2011-04-04 11:05:17,539 285395 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:05:17,549 285405 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:05:17,901 285757 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:05:18,142 285998 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:05:18,383 286239 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:05:18,392 286248 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:05:18,791 286647 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:05:18,793 286649 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:05:18,962 286818 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:05:18,964 286820 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:05:18,973 286829 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:05:30,315 298171 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:05:30,316 298172 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00017_Z_001.bmp 2011-04-04 11:05:30,324 298180 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00017_Z_001.bmp) 2011-04-04 11:05:30,324 298180 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:05:30,332 298188 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:05:30,333 298189 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:05:30,334 298190 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:05:30,337 298193 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:05:30,337 298193 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:05:30,337 298193 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:05:30,337 298193 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:05:30,337 298193 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:05:30,337 298193 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:05:30,338 298194 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:05:30,338 298194 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:05:30,338 298194 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:05:30,338 298194 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:05:30,338 298194 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:05:30,339 298195 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:05:30,340 298196 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:05:30,342 298198 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:05:30,343 298199 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:05:30,343 298199 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:05:30,343 298199 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:05:30,343 298199 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:05:30,343 298199 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:05:30,344 298200 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:05:30,344 298200 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:05:30,345 298201 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:05:30,345 298201 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:05:30,345 298201 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:05:30,345 298201 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:05:30,346 298202 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:05:30,347 298203 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:05:30,347 298203 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00017_Z_001.bmp 2011-04-04 11:05:30,349 298205 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:05:30,352 298208 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:05:30,353 298209 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:05:30,353 298209 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:05:30,354 298210 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:05:30,354 298210 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:05:30,355 298211 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00017_Z_001.bmp 2011-04-04 11:05:30,356 298212 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:05:30,356 298212 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:05:30,357 298213 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:05:30,358 298214 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:05:30,359 298215 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:05:30,359 298215 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:05:30,360 298216 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:05:30,361 298217 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:05:30,362 298218 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:05:30,362 298218 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:05:30,363 298219 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:05:30,364 298220 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:05:30,364 298220 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@edeea8,Image:0 2011-04-04 11:05:30,365 298221 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@132b73b,omero.model.OriginalFile:0 2011-04-04 11:05:30,366 298222 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@5ce0fe,Pixels:0 2011-04-04 11:05:30,367 298223 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@3449a8,Channel:0:0 2011-04-04 11:05:30,368 298224 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@51b0af,omero.model.Channel:0:1 2011-04-04 11:05:30,369 298225 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@85def8,omero.model.Channel:0:2 2011-04-04 11:05:30,370 298226 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@c3bb57,omero.model.FileAnnotation:0:0 2011-04-04 11:05:30,371 298227 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1d92803,omero.model.LogicalChannel:0:0 2011-04-04 11:05:30,371 298227 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@1c57a92,omero.model.LogicalChannel:0:1 2011-04-04 11:05:30,372 298228 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@129df79,omero.model.LogicalChannel:0:2 2011-04-04 11:05:30,373 298229 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:05:30,373 298229 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:05:30,374 298230 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:05:30,374 298230 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:05:30,375 298231 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:05:30,375 298231 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:05:30,428 298284 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7807 2011-04-04 11:05:30,428 298284 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:05:30,442 298298 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:05:30,812 298668 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:05:31,072 298928 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:05:31,324 299180 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:05:31,325 299181 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:05:31,745 299601 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:05:31,746 299602 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:05:31,907 299763 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:05:31,908 299764 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:05:31,912 299768 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:05:43,396 311252 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:05:43,397 311253 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00018_Z_001.bmp 2011-04-04 11:05:43,441 311297 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00018_Z_001.bmp) 2011-04-04 11:05:43,441 311297 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:05:43,449 311305 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:05:43,451 311307 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:05:43,451 311307 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:05:43,453 311309 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:05:43,453 311309 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:05:43,453 311309 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:05:43,453 311309 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:05:43,453 311309 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:05:43,454 311310 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:05:43,454 311310 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:05:43,454 311310 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:05:43,454 311310 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:05:43,454 311310 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:05:43,454 311310 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:05:43,461 311317 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:05:43,463 311319 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:05:43,465 311321 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:05:43,466 311322 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:05:43,466 311322 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:05:43,466 311322 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:05:43,466 311322 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:05:43,467 311323 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:05:43,467 311323 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:05:43,467 311323 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:05:43,467 311323 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:05:43,467 311323 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:05:43,467 311323 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:05:43,468 311324 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:05:43,475 311331 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:05:43,476 311332 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:05:43,480 311336 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00018_Z_001.bmp 2011-04-04 11:05:43,484 311340 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:05:43,490 311346 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:05:43,492 311348 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:05:43,493 311349 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:05:43,494 311350 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:05:43,495 311351 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:05:43,496 311352 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00018_Z_001.bmp 2011-04-04 11:05:43,497 311353 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:05:43,502 311358 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:05:43,502 311358 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:05:43,503 311359 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:05:43,504 311360 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:05:43,506 311362 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:05:43,506 311362 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:05:43,508 311364 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:05:43,514 311370 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:05:43,515 311371 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:05:43,547 311403 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:05:43,548 311404 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:05:43,548 311404 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@1557ee8,Image:0 2011-04-04 11:05:43,549 311405 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@a97cec,omero.model.OriginalFile:0 2011-04-04 11:05:43,550 311406 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@17db660,Pixels:0 2011-04-04 11:05:43,552 311408 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@1be1f3e,Channel:0:0 2011-04-04 11:05:43,554 311410 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@e7c832,omero.model.Channel:0:1 2011-04-04 11:05:43,555 311411 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@78e185,omero.model.Channel:0:2 2011-04-04 11:05:43,556 311412 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@9b3e5e,omero.model.FileAnnotation:0:0 2011-04-04 11:05:43,556 311412 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@13fc437,omero.model.LogicalChannel:0:0 2011-04-04 11:05:43,558 311414 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@125bbd3,omero.model.LogicalChannel:0:1 2011-04-04 11:05:43,558 311414 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@13d556f,omero.model.LogicalChannel:0:2 2011-04-04 11:05:43,559 311415 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:05:43,560 311416 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:05:43,561 311417 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:05:43,562 311418 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:05:43,564 311420 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:05:43,564 311420 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:05:43,619 311475 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7808 2011-04-04 11:05:43,620 311476 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:05:43,636 311492 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:05:43,976 311832 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:05:44,225 312081 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:05:44,232 312088 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:05:44,468 312324 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:05:44,469 312325 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:05:44,877 312733 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:05:44,878 312734 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:05:45,086 312942 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:05:45,086 312942 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:05:45,086 312942 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:05:56,348 324204 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:05:56,349 324205 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00019_Z_001.bmp 2011-04-04 11:05:56,357 324213 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00019_Z_001.bmp) 2011-04-04 11:05:56,357 324213 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:05:56,374 324230 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:05:56,380 324236 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:05:56,381 324237 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:05:56,409 324265 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:05:56,409 324265 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:05:56,409 324265 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:05:56,409 324265 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:05:56,409 324265 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:05:56,409 324265 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:05:56,410 324266 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:05:56,410 324266 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:05:56,410 324266 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:05:56,410 324266 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:05:56,410 324266 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:05:56,415 324271 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:05:56,420 324276 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:05:56,433 324289 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:05:56,439 324295 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:05:56,439 324295 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:05:56,439 324295 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:05:56,439 324295 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:05:56,439 324295 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:05:56,439 324295 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:05:56,439 324295 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:05:56,440 324296 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:05:56,440 324296 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:05:56,440 324296 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:05:56,440 324296 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:05:56,442 324298 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:05:56,447 324303 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:05:56,451 324307 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00019_Z_001.bmp 2011-04-04 11:05:56,461 324317 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:05:56,464 324320 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:05:56,465 324321 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:05:56,470 324326 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:05:56,471 324327 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:05:56,471 324327 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:05:56,472 324328 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00019_Z_001.bmp 2011-04-04 11:05:56,472 324328 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:05:56,473 324329 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:05:56,473 324329 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:05:56,474 324330 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:05:56,474 324330 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:05:56,475 324331 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:05:56,476 324332 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:05:56,506 324362 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:05:56,507 324363 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:05:56,508 324364 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:05:56,509 324365 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:05:56,510 324366 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:05:56,514 324370 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@17531fd,Image:0 2011-04-04 11:05:56,519 324375 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@1630eb6,omero.model.OriginalFile:0 2011-04-04 11:05:56,520 324376 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@a50a00,Pixels:0 2011-04-04 11:05:56,521 324377 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@c4b626,Channel:0:0 2011-04-04 11:05:56,522 324378 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@5e25f3,omero.model.Channel:0:1 2011-04-04 11:05:56,551 324407 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@1fc7299,omero.model.Channel:0:2 2011-04-04 11:05:56,553 324409 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@904497,omero.model.FileAnnotation:0:0 2011-04-04 11:05:56,554 324410 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@e9e799,omero.model.LogicalChannel:0:0 2011-04-04 11:05:56,554 324410 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@11b92ef,omero.model.LogicalChannel:0:1 2011-04-04 11:05:56,557 324413 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@2df8f8,omero.model.LogicalChannel:0:2 2011-04-04 11:05:56,557 324413 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:05:56,558 324414 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:05:56,597 324453 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:05:56,599 324455 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:05:56,600 324456 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:05:56,600 324456 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:05:56,653 324509 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7809 2011-04-04 11:05:56,664 324520 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:05:56,675 324531 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:05:57,055 324911 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:05:57,309 325165 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:05:57,544 325400 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:05:57,545 325401 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:05:57,967 325823 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:05:57,973 325829 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:05:58,138 325994 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:05:58,139 325995 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:05:58,148 326004 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:06:09,319 337175 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:06:09,320 337176 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00020_Z_001.bmp 2011-04-04 11:06:09,383 337239 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00020_Z_001.bmp) 2011-04-04 11:06:09,383 337239 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:06:09,391 337247 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:06:09,393 337249 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:06:09,394 337250 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:06:09,400 337256 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:06:09,400 337256 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:06:09,400 337256 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:06:09,400 337256 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:06:09,400 337256 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:06:09,401 337257 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:06:09,401 337257 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:06:09,401 337257 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:06:09,401 337257 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:06:09,401 337257 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:06:09,402 337258 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:06:09,410 337266 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:06:09,411 337267 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:06:09,419 337275 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:06:09,430 337286 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:06:09,430 337286 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:06:09,430 337286 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:06:09,431 337287 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:06:09,431 337287 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:06:09,431 337287 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:06:09,432 337288 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:06:09,432 337288 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:06:09,432 337288 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:06:09,432 337288 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:06:09,432 337288 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:06:09,433 337289 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:06:09,434 337290 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:06:09,434 337290 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00020_Z_001.bmp 2011-04-04 11:06:09,436 337292 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:06:09,456 337312 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:06:09,457 337313 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:06:09,459 337315 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:06:09,506 337362 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:06:09,507 337363 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:06:09,507 337363 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00020_Z_001.bmp 2011-04-04 11:06:09,508 337364 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:06:09,509 337365 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:06:09,509 337365 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:06:09,510 337366 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:06:09,510 337366 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:06:09,511 337367 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:06:09,512 337368 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:06:09,512 337368 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:06:09,513 337369 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:06:09,514 337370 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:06:09,514 337370 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:06:09,515 337371 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:06:09,516 337372 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@fa1f5,Image:0 2011-04-04 11:06:09,517 337373 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@1cd1d94,omero.model.OriginalFile:0 2011-04-04 11:06:09,518 337374 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@1e932d5,Pixels:0 2011-04-04 11:06:09,519 337375 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@833a2e,Channel:0:0 2011-04-04 11:06:09,521 337377 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@8d63cf,omero.model.Channel:0:1 2011-04-04 11:06:09,522 337378 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@7587b2,omero.model.Channel:0:2 2011-04-04 11:06:09,523 337379 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@15f6af,omero.model.FileAnnotation:0:0 2011-04-04 11:06:09,524 337380 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1205042,omero.model.LogicalChannel:0:0 2011-04-04 11:06:09,530 337386 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@b612f8,omero.model.LogicalChannel:0:1 2011-04-04 11:06:09,530 337386 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@6cbb2d,omero.model.LogicalChannel:0:2 2011-04-04 11:06:09,531 337387 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:06:09,531 337387 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:06:09,532 337388 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:06:09,533 337389 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:06:09,533 337389 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:06:09,534 337390 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:06:09,605 337461 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7810 2011-04-04 11:06:09,606 337462 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:06:09,614 337470 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:06:10,233 338089 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:06:10,524 338380 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:06:10,795 338651 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:06:10,796 338652 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:06:11,237 339093 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:06:11,238 339094 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:06:11,422 339278 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:06:11,423 339279 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:06:11,427 339283 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:06:23,076 350932 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:06:23,077 350933 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00021_Z_001.bmp 2011-04-04 11:06:23,081 350937 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00021_Z_001.bmp) 2011-04-04 11:06:23,081 350937 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:06:23,088 350944 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:06:23,090 350946 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:06:23,091 350947 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:06:23,092 350948 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:06:23,092 350948 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:06:23,092 350948 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:06:23,092 350948 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:06:23,092 350948 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:06:23,092 350948 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:06:23,093 350949 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:06:23,093 350949 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:06:23,093 350949 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:06:23,093 350949 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:06:23,093 350949 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:06:23,125 350981 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:06:23,126 350982 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:06:23,129 350985 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:06:23,131 350987 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:06:23,132 350988 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:06:23,132 350988 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:06:23,132 350988 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:06:23,132 350988 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:06:23,132 350988 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:06:23,132 350988 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:06:23,134 350990 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:06:23,134 350990 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:06:23,134 350990 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:06:23,134 350990 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:06:23,135 350991 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:06:23,136 350992 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:06:23,136 350992 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00021_Z_001.bmp 2011-04-04 11:06:23,138 350994 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:06:23,140 350996 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:06:23,141 350997 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:06:23,141 350997 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:06:23,142 350998 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:06:23,142 350998 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:06:23,143 350999 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00021_Z_001.bmp 2011-04-04 11:06:23,143 350999 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:06:23,144 351000 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:06:23,144 351000 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:06:23,145 351001 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:06:23,146 351002 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:06:23,146 351002 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:06:23,147 351003 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:06:23,148 351004 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:06:23,149 351005 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:06:23,149 351005 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:06:23,150 351006 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:06:23,150 351006 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:06:23,151 351007 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@1db1fe0,Image:0 2011-04-04 11:06:23,152 351008 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@1945696,omero.model.OriginalFile:0 2011-04-04 11:06:23,152 351008 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@12c9e5d,Pixels:0 2011-04-04 11:06:23,153 351009 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@9e53ed,Channel:0:0 2011-04-04 11:06:23,153 351009 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@5084c6,omero.model.Channel:0:1 2011-04-04 11:06:23,154 351010 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@1db8f3a,omero.model.Channel:0:2 2011-04-04 11:06:23,155 351011 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@ec849e,omero.model.FileAnnotation:0:0 2011-04-04 11:06:23,155 351011 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@b1656f,omero.model.LogicalChannel:0:0 2011-04-04 11:06:23,156 351012 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@155e0bc,omero.model.LogicalChannel:0:1 2011-04-04 11:06:23,156 351012 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@1404c51,omero.model.LogicalChannel:0:2 2011-04-04 11:06:23,157 351013 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:06:23,157 351013 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:06:23,158 351014 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:06:23,159 351015 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:06:23,159 351015 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:06:23,164 351020 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:06:23,225 351081 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7811 2011-04-04 11:06:23,225 351081 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:06:23,235 351091 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:06:23,650 351506 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:06:23,901 351757 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:06:24,149 352005 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:06:24,150 352006 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:06:24,559 352415 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:06:24,560 352416 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:06:24,753 352609 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:06:24,753 352609 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:06:24,764 352620 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:06:35,933 363789 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:06:35,934 363790 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00022_Z_001.bmp 2011-04-04 11:06:35,944 363800 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00022_Z_001.bmp) 2011-04-04 11:06:35,944 363800 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:06:35,979 363835 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:06:35,981 363837 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:06:35,982 363838 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:06:36,083 363939 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:06:36,083 363939 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:06:36,083 363939 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:06:36,083 363939 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:06:36,083 363939 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:06:36,083 363939 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:06:36,083 363939 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:06:36,083 363939 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:06:36,083 363939 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:06:36,083 363939 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:06:36,083 363939 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:06:36,083 363939 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:06:36,093 363949 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:06:36,103 363959 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:06:36,103 363959 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:06:36,103 363959 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:06:36,103 363959 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:06:36,103 363959 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:06:36,103 363959 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:06:36,103 363959 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:06:36,103 363959 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:06:36,103 363959 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:06:36,103 363959 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:06:36,103 363959 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:06:36,103 363959 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:06:36,103 363959 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:06:36,103 363959 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:06:36,103 363959 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00022_Z_001.bmp 2011-04-04 11:06:36,103 363959 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:06:36,139 363995 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:06:36,152 364008 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:06:36,153 364009 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:06:36,153 364009 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:06:36,154 364010 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:06:36,154 364010 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00022_Z_001.bmp 2011-04-04 11:06:36,155 364011 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:06:36,156 364012 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:06:36,157 364013 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:06:36,157 364013 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:06:36,158 364014 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:06:36,159 364015 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:06:36,159 364015 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:06:36,160 364016 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:06:36,161 364017 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:06:36,162 364018 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:06:36,163 364019 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:06:36,163 364019 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:06:36,164 364020 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@fe210a,Image:0 2011-04-04 11:06:36,164 364020 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@ca1465,omero.model.OriginalFile:0 2011-04-04 11:06:36,165 364021 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@20ea6c,Pixels:0 2011-04-04 11:06:36,166 364022 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@64af0f,Channel:0:0 2011-04-04 11:06:36,167 364023 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@1aa1db8,omero.model.Channel:0:1 2011-04-04 11:06:36,167 364023 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@8a6351,omero.model.Channel:0:2 2011-04-04 11:06:36,168 364024 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@130b97d,omero.model.FileAnnotation:0:0 2011-04-04 11:06:36,170 364026 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1e85928,omero.model.LogicalChannel:0:0 2011-04-04 11:06:36,172 364028 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@1ba0281,omero.model.LogicalChannel:0:1 2011-04-04 11:06:36,188 364044 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@1cb1d37,omero.model.LogicalChannel:0:2 2011-04-04 11:06:36,189 364045 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:06:36,189 364045 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:06:36,190 364046 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:06:36,190 364046 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:06:36,191 364047 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:06:36,191 364047 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:06:36,248 364104 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7812 2011-04-04 11:06:36,249 364105 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:06:36,255 364111 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:06:36,655 364511 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:06:36,923 364779 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:06:37,172 365028 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:06:37,173 365029 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:06:37,605 365461 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:06:37,606 365462 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:06:37,810 365666 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:06:37,811 365667 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:06:37,818 365674 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:06:44,224 372080 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:06:49,080 376936 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:06:49,080 376936 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00023_Z_001.bmp 2011-04-04 11:06:49,090 376946 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00023_Z_001.bmp) 2011-04-04 11:06:49,090 376946 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:06:49,110 376966 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:06:49,110 376966 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:06:49,110 376966 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:06:49,120 376976 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:06:49,120 376976 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:06:49,120 376976 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:06:49,120 376976 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:06:49,120 376976 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:06:49,120 376976 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:06:49,120 376976 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:06:49,120 376976 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:06:49,120 376976 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:06:49,120 376976 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:06:49,120 376976 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:06:49,200 377056 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:06:49,200 377056 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:06:49,200 377056 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:06:49,210 377066 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:06:49,210 377066 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:06:49,210 377066 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:06:49,210 377066 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:06:49,210 377066 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:06:49,210 377066 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:06:49,210 377066 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:06:49,210 377066 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:06:49,210 377066 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:06:49,210 377066 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:06:49,210 377066 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:06:49,210 377066 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:06:49,210 377066 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:06:49,210 377066 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00023_Z_001.bmp 2011-04-04 11:06:49,220 377076 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:06:49,230 377086 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:06:49,230 377086 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:06:49,230 377086 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:06:49,230 377086 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:06:49,230 377086 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:06:49,230 377086 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00023_Z_001.bmp 2011-04-04 11:06:49,230 377086 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:06:49,230 377086 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:06:49,230 377086 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:06:49,230 377086 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:06:49,230 377086 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:06:49,230 377086 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:06:49,240 377096 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:06:49,240 377096 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:06:49,270 377126 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:06:49,280 377136 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:06:49,280 377136 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:06:49,280 377136 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:06:49,290 377146 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@13e55db,Image:0 2011-04-04 11:06:49,290 377146 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@14322d1,omero.model.OriginalFile:0 2011-04-04 11:06:49,300 377156 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@c07930,Pixels:0 2011-04-04 11:06:49,310 377166 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@87286,Channel:0:0 2011-04-04 11:06:49,310 377166 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@18c5b4f,omero.model.Channel:0:1 2011-04-04 11:06:49,310 377166 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@1cfb56,omero.model.Channel:0:2 2011-04-04 11:06:49,320 377176 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@1f88953,omero.model.FileAnnotation:0:0 2011-04-04 11:06:49,320 377176 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1abdb8a,omero.model.LogicalChannel:0:0 2011-04-04 11:06:49,330 377186 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@6ac18c,omero.model.LogicalChannel:0:1 2011-04-04 11:06:49,330 377186 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@b21d14,omero.model.LogicalChannel:0:2 2011-04-04 11:06:49,330 377186 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:06:49,330 377186 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:06:49,330 377186 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:06:49,330 377186 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:06:49,330 377186 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:06:49,340 377196 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:06:49,400 377256 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7813 2011-04-04 11:06:49,410 377266 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:06:49,420 377276 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:06:49,782 377638 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:06:50,029 377885 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:06:50,275 378131 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:06:50,275 378131 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:06:50,683 378539 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:06:50,684 378540 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:06:50,821 378677 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:06:50,822 378678 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:06:50,827 378683 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:07:02,034 389890 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:07:02,035 389891 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00024_Z_001.bmp 2011-04-04 11:07:02,040 389896 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00024_Z_001.bmp) 2011-04-04 11:07:02,040 389896 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:07:02,049 389905 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:07:02,052 389908 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:07:02,053 389909 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:07:02,057 389913 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:07:02,057 389913 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:07:02,057 389913 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:07:02,057 389913 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:07:02,057 389913 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:07:02,058 389914 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:07:02,058 389914 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:07:02,058 389914 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:07:02,058 389914 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:07:02,058 389914 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:07:02,058 389914 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:07:02,084 389940 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:07:02,086 389942 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:07:02,088 389944 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:07:02,090 389946 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:07:02,090 389946 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:07:02,090 389946 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:07:02,090 389946 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:07:02,090 389946 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:07:02,091 389947 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:07:02,091 389947 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:07:02,091 389947 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:07:02,091 389947 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:07:02,091 389947 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:07:02,091 389947 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:07:02,097 389953 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:07:02,102 389958 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:07:02,102 389958 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00024_Z_001.bmp 2011-04-04 11:07:02,109 389965 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:07:02,139 389995 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:07:02,175 390031 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:07:02,176 390032 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:07:02,176 390032 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:07:02,177 390033 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:07:02,177 390033 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00024_Z_001.bmp 2011-04-04 11:07:02,178 390034 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:07:02,178 390034 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:07:02,179 390035 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:07:02,179 390035 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:07:02,180 390036 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:07:02,183 390039 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:07:02,184 390040 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:07:02,187 390043 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:07:02,188 390044 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:07:02,188 390044 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:07:02,189 390045 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:07:02,190 390046 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:07:02,190 390046 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@1431028,Image:0 2011-04-04 11:07:02,191 390047 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@de4588,omero.model.OriginalFile:0 2011-04-04 11:07:02,191 390047 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@1a489ad,Pixels:0 2011-04-04 11:07:02,192 390048 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@1214726,Channel:0:0 2011-04-04 11:07:02,192 390048 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@19f963e,omero.model.Channel:0:1 2011-04-04 11:07:02,193 390049 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@186b570,omero.model.Channel:0:2 2011-04-04 11:07:02,194 390050 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@7b6d1c,omero.model.FileAnnotation:0:0 2011-04-04 11:07:02,194 390050 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@16ee240,omero.model.LogicalChannel:0:0 2011-04-04 11:07:02,195 390051 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@e8a298,omero.model.LogicalChannel:0:1 2011-04-04 11:07:02,196 390052 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@7e9bed,omero.model.LogicalChannel:0:2 2011-04-04 11:07:02,208 390064 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:07:02,209 390065 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:07:02,209 390065 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:07:02,210 390066 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:07:02,210 390066 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:07:02,211 390067 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:07:02,263 390119 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7814 2011-04-04 11:07:02,265 390121 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:07:02,272 390128 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:07:02,646 390502 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:07:02,901 390757 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:07:03,150 391006 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:07:03,151 391007 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:07:03,558 391414 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:07:03,559 391415 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:07:03,744 391600 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:07:03,745 391601 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:07:03,753 391609 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:07:15,686 403542 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:07:15,688 403544 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00025_Z_001.bmp 2011-04-04 11:07:15,691 403547 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_00_image_00025_Z_001.bmp) 2011-04-04 11:07:15,692 403548 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:07:15,700 403556 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:07:15,703 403559 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:07:15,704 403560 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:07:15,705 403561 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:07:15,705 403561 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:07:15,705 403561 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:07:15,705 403561 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:07:15,705 403561 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:07:15,706 403562 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:07:15,706 403562 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:07:15,706 403562 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:07:15,706 403562 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:07:15,706 403562 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:07:15,706 403562 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:07:15,735 403591 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:07:15,736 403592 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:07:15,738 403594 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:07:15,739 403595 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:07:15,740 403596 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:07:15,740 403596 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:07:15,740 403596 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:07:15,740 403596 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:07:15,740 403596 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:07:15,740 403596 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:07:15,741 403597 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:07:15,741 403597 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:07:15,741 403597 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:07:15,741 403597 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:07:15,742 403598 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:07:15,743 403599 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:07:15,744 403600 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00025_Z_001.bmp 2011-04-04 11:07:15,745 403601 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:07:15,784 403640 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:07:15,800 403656 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:07:15,801 403657 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:07:15,805 403661 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:07:15,809 403665 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:07:15,817 403673 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_00_image_00025_Z_001.bmp 2011-04-04 11:07:15,817 403673 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:07:15,829 403685 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:07:15,830 403686 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:07:15,830 403686 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:07:15,831 403687 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:07:15,832 403688 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:07:15,832 403688 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:07:15,833 403689 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:07:15,834 403690 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:07:15,834 403690 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:07:15,835 403691 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:07:15,835 403691 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:07:15,835 403691 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@15d80cf,Image:0 2011-04-04 11:07:15,836 403692 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@135f92f,omero.model.OriginalFile:0 2011-04-04 11:07:15,836 403692 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@165de14,Pixels:0 2011-04-04 11:07:15,837 403693 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@29dbb8,Channel:0:0 2011-04-04 11:07:15,838 403694 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@1dc11af,omero.model.Channel:0:1 2011-04-04 11:07:15,842 403698 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@2f6be5,omero.model.Channel:0:2 2011-04-04 11:07:15,846 403702 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@18a4aef,omero.model.FileAnnotation:0:0 2011-04-04 11:07:15,850 403706 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@142ef25,omero.model.LogicalChannel:0:0 2011-04-04 11:07:15,858 403714 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@a7b7ff,omero.model.LogicalChannel:0:1 2011-04-04 11:07:15,858 403714 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@19d4a86,omero.model.LogicalChannel:0:2 2011-04-04 11:07:15,862 403718 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:07:15,866 403722 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:07:15,870 403726 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:07:15,875 403731 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:07:15,879 403735 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:07:15,883 403739 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:07:15,937 403793 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7815 2011-04-04 11:07:15,938 403794 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:07:15,948 403804 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:07:16,301 404157 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:07:16,552 404408 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:07:16,776 404632 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:07:16,777 404633 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:07:17,185 405041 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:07:17,186 405042 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:07:17,344 405200 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:07:17,345 405201 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:07:17,357 405213 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:07:28,605 416461 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:07:28,606 416462 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00001_Z_001.bmp 2011-04-04 11:07:28,610 416466 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00001_Z_001.bmp) 2011-04-04 11:07:28,610 416466 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:07:28,618 416474 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:07:28,621 416477 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:07:28,621 416477 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:07:28,624 416480 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:07:28,624 416480 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:07:28,624 416480 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:07:28,624 416480 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:07:28,624 416480 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:07:28,624 416480 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:07:28,624 416480 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:07:28,625 416481 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:07:28,625 416481 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:07:28,625 416481 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:07:28,625 416481 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:07:28,626 416482 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:07:28,628 416484 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:07:28,631 416487 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:07:28,662 416518 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:07:28,662 416518 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:07:28,662 416518 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:07:28,663 416519 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:07:28,663 416519 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:07:28,663 416519 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:07:28,663 416519 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:07:28,664 416520 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:07:28,664 416520 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:07:28,664 416520 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:07:28,664 416520 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:07:28,670 416526 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:07:28,675 416531 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:07:28,676 416532 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00001_Z_001.bmp 2011-04-04 11:07:28,688 416544 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:07:28,711 416567 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:07:28,728 416584 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:07:28,729 416585 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:07:28,730 416586 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:07:28,731 416587 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:07:28,732 416588 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00001_Z_001.bmp 2011-04-04 11:07:28,732 416588 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:07:28,733 416589 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:07:28,734 416590 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:07:28,734 416590 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:07:28,740 416596 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:07:28,740 416596 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:07:28,742 416598 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:07:28,743 416599 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:07:28,743 416599 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:07:28,744 416600 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:07:28,745 416601 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:07:28,745 416601 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:07:28,746 416602 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@e707bb,Image:0 2011-04-04 11:07:28,747 416603 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@bb9f5b,omero.model.OriginalFile:0 2011-04-04 11:07:28,748 416604 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@6bcef1,Pixels:0 2011-04-04 11:07:28,748 416604 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@c5dbb,Channel:0:0 2011-04-04 11:07:28,749 416605 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@6963b0,omero.model.Channel:0:1 2011-04-04 11:07:28,750 416606 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@1c3d34b,omero.model.Channel:0:2 2011-04-04 11:07:28,750 416606 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@132ece7,omero.model.FileAnnotation:0:0 2011-04-04 11:07:28,751 416607 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@165391b,omero.model.LogicalChannel:0:0 2011-04-04 11:07:28,752 416608 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@1745e95,omero.model.LogicalChannel:0:1 2011-04-04 11:07:28,753 416609 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@109506a,omero.model.LogicalChannel:0:2 2011-04-04 11:07:28,753 416609 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:07:28,754 416610 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:07:28,755 416611 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:07:28,787 416643 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:07:28,788 416644 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:07:28,788 416644 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:07:28,837 416693 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7816 2011-04-04 11:07:28,838 416694 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:07:28,848 416704 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:07:29,252 417108 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:07:29,491 417347 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:07:29,733 417589 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:07:29,733 417589 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:07:30,144 418000 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:07:30,146 418002 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:07:30,327 418183 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:07:30,327 418183 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:07:30,335 418191 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:07:42,109 429965 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:07:42,109 429965 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00002_Z_001.bmp 2011-04-04 11:07:42,109 429965 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00002_Z_001.bmp) 2011-04-04 11:07:42,109 429965 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:07:42,117 429973 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:07:42,119 429975 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:07:42,121 429977 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:07:42,122 429978 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:07:42,123 429979 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:07:42,123 429979 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:07:42,123 429979 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:07:42,123 429979 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:07:42,123 429979 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:07:42,124 429980 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:07:42,124 429980 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:07:42,124 429980 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:07:42,124 429980 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:07:42,124 429980 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:07:42,125 429981 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:07:42,127 429983 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:07:42,130 429986 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:07:42,132 429988 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:07:42,132 429988 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:07:42,132 429988 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:07:42,132 429988 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:07:42,132 429988 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:07:42,133 429989 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:07:42,133 429989 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:07:42,134 429990 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:07:42,134 429990 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:07:42,134 429990 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:07:42,134 429990 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:07:42,181 430037 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:07:42,182 430038 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:07:42,183 430039 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00002_Z_001.bmp 2011-04-04 11:07:42,186 430042 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:07:42,192 430048 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:07:42,193 430049 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:07:42,193 430049 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:07:42,194 430050 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:07:42,198 430054 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:07:42,199 430055 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00002_Z_001.bmp 2011-04-04 11:07:42,199 430055 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:07:42,200 430056 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:07:42,200 430056 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:07:42,201 430057 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:07:42,201 430057 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:07:42,202 430058 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:07:42,202 430058 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:07:42,203 430059 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:07:42,204 430060 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:07:42,204 430060 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:07:42,205 430061 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:07:42,205 430061 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:07:42,206 430062 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@15bc68c,Image:0 2011-04-04 11:07:42,206 430062 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@da5318,omero.model.OriginalFile:0 2011-04-04 11:07:42,207 430063 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@5138a4,Pixels:0 2011-04-04 11:07:42,208 430064 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@11c9fcc,Channel:0:0 2011-04-04 11:07:42,245 430101 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@5995ba,omero.model.Channel:0:1 2011-04-04 11:07:42,246 430102 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@d39ac,omero.model.Channel:0:2 2011-04-04 11:07:42,246 430102 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@14d3343,omero.model.FileAnnotation:0:0 2011-04-04 11:07:42,247 430103 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@5d1647,omero.model.LogicalChannel:0:0 2011-04-04 11:07:42,248 430104 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@207d99,omero.model.LogicalChannel:0:1 2011-04-04 11:07:42,249 430105 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@a33d00,omero.model.LogicalChannel:0:2 2011-04-04 11:07:42,251 430107 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:07:42,252 430108 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:07:42,253 430109 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:07:42,254 430110 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:07:42,254 430110 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:07:42,255 430111 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:07:42,308 430164 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7817 2011-04-04 11:07:42,309 430165 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:07:42,320 430176 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:07:42,682 430538 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:07:42,913 430769 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:07:43,145 431001 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:07:43,146 431002 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:07:43,567 431423 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:07:43,568 431424 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:07:43,738 431594 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:07:43,738 431594 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:07:43,746 431602 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:07:44,225 432081 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:07:54,949 442805 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:07:54,953 442809 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00003_Z_001.bmp 2011-04-04 11:07:54,959 442815 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00003_Z_001.bmp) 2011-04-04 11:07:54,959 442815 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:07:55,002 442858 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:07:55,004 442860 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:07:55,005 442861 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:07:55,014 442870 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:07:55,014 442870 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:07:55,014 442870 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:07:55,014 442870 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:07:55,014 442870 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:07:55,014 442870 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:07:55,015 442871 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:07:55,015 442871 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:07:55,015 442871 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:07:55,015 442871 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:07:55,015 442871 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:07:55,016 442872 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:07:55,043 442899 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:07:55,046 442902 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:07:55,048 442904 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:07:55,048 442904 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:07:55,048 442904 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:07:55,048 442904 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:07:55,048 442904 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:07:55,049 442905 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:07:55,049 442905 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:07:55,049 442905 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:07:55,049 442905 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:07:55,049 442905 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:07:55,050 442906 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:07:55,051 442907 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:07:55,051 442907 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:07:55,052 442908 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00003_Z_001.bmp 2011-04-04 11:07:55,053 442909 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:07:55,125 442981 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:07:55,125 442981 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:07:55,130 442986 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:07:55,140 442996 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:07:55,140 442996 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:07:55,141 442997 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00003_Z_001.bmp 2011-04-04 11:07:55,141 442997 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:07:55,142 442998 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:07:55,143 442999 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:07:55,144 443000 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:07:55,145 443001 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:07:55,146 443002 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:07:55,147 443003 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:07:55,147 443003 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:07:55,148 443004 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:07:55,148 443004 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:07:55,149 443005 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:07:55,150 443006 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:07:55,150 443006 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@1da3acc,Image:0 2011-04-04 11:07:55,151 443007 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@e74663,omero.model.OriginalFile:0 2011-04-04 11:07:55,151 443007 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@c1abcf,Pixels:0 2011-04-04 11:07:55,152 443008 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@54864c,Channel:0:0 2011-04-04 11:07:55,152 443008 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@25a5d2,omero.model.Channel:0:1 2011-04-04 11:07:55,153 443009 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@1d694da,omero.model.Channel:0:2 2011-04-04 11:07:55,153 443009 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@1d6e4a4,omero.model.FileAnnotation:0:0 2011-04-04 11:07:55,154 443010 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@54c2b8,omero.model.LogicalChannel:0:0 2011-04-04 11:07:55,154 443010 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@4a0a42,omero.model.LogicalChannel:0:1 2011-04-04 11:07:55,155 443011 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@1f899e9,omero.model.LogicalChannel:0:2 2011-04-04 11:07:55,155 443011 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:07:55,156 443012 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:07:55,156 443012 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:07:55,157 443013 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:07:55,157 443013 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:07:55,157 443013 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:07:55,210 443066 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7818 2011-04-04 11:07:55,211 443067 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:07:55,221 443077 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:07:55,581 443437 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:07:55,833 443689 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:07:56,113 443969 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:07:56,114 443970 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:07:56,526 444382 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:07:56,527 444383 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:07:56,695 444551 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:07:56,696 444552 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:07:56,702 444558 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:08:08,706 456562 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:08:08,707 456563 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00004_Z_001.bmp 2011-04-04 11:08:08,711 456567 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00004_Z_001.bmp) 2011-04-04 11:08:08,712 456568 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:08:08,733 456589 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:08:08,735 456591 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:08:08,736 456592 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:08:08,739 456595 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:08:08,740 456596 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:08:08,740 456596 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:08:08,740 456596 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:08:08,740 456596 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:08:08,741 456597 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:08:08,741 456597 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:08:08,742 456598 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:08:08,742 456598 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:08:08,742 456598 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:08:08,742 456598 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:08:08,743 456599 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:08:08,744 456600 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:08:08,747 456603 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:08:08,787 456643 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:08:08,787 456643 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:08:08,787 456643 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:08:08,788 456644 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:08:08,788 456644 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:08:08,788 456644 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:08:08,788 456644 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:08:08,789 456645 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:08:08,789 456645 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:08:08,789 456645 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:08:08,790 456646 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:08:08,791 456647 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:08:08,799 456655 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:08:08,807 456663 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00004_Z_001.bmp 2011-04-04 11:08:08,809 456665 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:08:08,850 456706 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:08:08,881 456737 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:08:08,881 456737 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:08:08,882 456738 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:08:08,883 456739 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:08:08,883 456739 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00004_Z_001.bmp 2011-04-04 11:08:08,883 456739 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:08:08,884 456740 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:08:08,884 456740 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:08:08,885 456741 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:08:08,885 456741 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:08:08,886 456742 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:08:08,887 456743 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:08:08,887 456743 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:08:08,888 456744 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:08:08,889 456745 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:08:08,889 456745 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:08:08,890 456746 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:08:08,891 456747 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@a450bb,Image:0 2011-04-04 11:08:08,891 456747 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@1030dda,omero.model.OriginalFile:0 2011-04-04 11:08:08,892 456748 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@1da692f,Pixels:0 2011-04-04 11:08:08,893 456749 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@5765b0,Channel:0:0 2011-04-04 11:08:08,897 456753 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@10e3816,omero.model.Channel:0:1 2011-04-04 11:08:08,898 456754 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@330301,omero.model.Channel:0:2 2011-04-04 11:08:08,899 456755 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@1eee3fb,omero.model.FileAnnotation:0:0 2011-04-04 11:08:08,899 456755 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@906563,omero.model.LogicalChannel:0:0 2011-04-04 11:08:08,900 456756 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@6b54ef,omero.model.LogicalChannel:0:1 2011-04-04 11:08:08,900 456756 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@1f7dab1,omero.model.LogicalChannel:0:2 2011-04-04 11:08:08,901 456757 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:08:08,901 456757 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:08:08,901 456757 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:08:08,902 456758 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:08:08,902 456758 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:08:08,903 456759 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:08:08,961 456817 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7819 2011-04-04 11:08:08,962 456818 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:08:08,973 456829 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:08:09,356 457212 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:08:09,604 457460 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:08:09,834 457690 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:08:09,835 457691 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:08:10,255 458111 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:08:10,256 458112 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:08:10,412 458268 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:08:10,413 458269 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:08:10,421 458277 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:08:21,718 469574 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:08:21,719 469575 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00005_Z_001.bmp 2011-04-04 11:08:21,724 469580 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00005_Z_001.bmp) 2011-04-04 11:08:21,724 469580 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:08:21,735 469591 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:08:21,738 469594 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:08:21,738 469594 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:08:21,740 469596 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:08:21,740 469596 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:08:21,740 469596 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:08:21,740 469596 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:08:21,741 469597 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:08:21,741 469597 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:08:21,741 469597 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:08:21,742 469598 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:08:21,742 469598 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:08:21,742 469598 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:08:21,742 469598 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:08:21,743 469599 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:08:21,744 469600 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:08:21,747 469603 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:08:21,749 469605 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:08:21,749 469605 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:08:21,749 469605 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:08:21,749 469605 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:08:21,749 469605 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:08:21,750 469606 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:08:21,750 469606 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:08:21,750 469606 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:08:21,750 469606 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:08:21,750 469606 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:08:21,751 469607 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:08:21,751 469607 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:08:21,752 469608 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:08:21,753 469609 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00005_Z_001.bmp 2011-04-04 11:08:21,811 469667 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:08:21,825 469681 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:08:21,826 469682 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:08:21,828 469684 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:08:21,829 469685 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:08:21,829 469685 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:08:21,830 469686 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00005_Z_001.bmp 2011-04-04 11:08:21,831 469687 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:08:21,839 469695 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:08:21,840 469696 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:08:21,841 469697 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:08:21,843 469699 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:08:21,844 469700 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:08:21,847 469703 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:08:21,848 469704 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:08:21,849 469705 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:08:21,850 469706 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:08:21,851 469707 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:08:21,852 469708 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:08:21,853 469709 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@29626a,Image:0 2011-04-04 11:08:21,853 469709 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@1330af4,omero.model.OriginalFile:0 2011-04-04 11:08:21,854 469710 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@1ddbcb1,Pixels:0 2011-04-04 11:08:21,855 469711 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@17cd18d,Channel:0:0 2011-04-04 11:08:21,856 469712 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@d55a0f,omero.model.Channel:0:1 2011-04-04 11:08:21,857 469713 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@6d234c,omero.model.Channel:0:2 2011-04-04 11:08:21,858 469714 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@e77ca4,omero.model.FileAnnotation:0:0 2011-04-04 11:08:21,858 469714 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@16c2195,omero.model.LogicalChannel:0:0 2011-04-04 11:08:21,859 469715 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@24de67,omero.model.LogicalChannel:0:1 2011-04-04 11:08:21,860 469716 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@1be4050,omero.model.LogicalChannel:0:2 2011-04-04 11:08:21,861 469717 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:08:21,861 469717 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:08:21,862 469718 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:08:21,863 469719 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:08:21,864 469720 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:08:21,902 469758 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:08:21,956 469812 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7820 2011-04-04 11:08:21,957 469813 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:08:21,972 469828 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:08:22,363 470219 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:08:22,618 470474 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:08:22,873 470729 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:08:22,873 470729 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:08:23,290 471146 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:08:23,291 471147 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:08:23,479 471335 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:08:23,480 471336 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:08:23,491 471347 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:08:35,275 483131 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:08:35,276 483132 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00006_Z_001.bmp 2011-04-04 11:08:35,280 483136 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00006_Z_001.bmp) 2011-04-04 11:08:35,280 483136 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:08:35,294 483150 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:08:35,296 483152 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:08:35,296 483152 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:08:35,298 483154 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:08:35,298 483154 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:08:35,298 483154 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:08:35,298 483154 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:08:35,298 483154 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:08:35,298 483154 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:08:35,298 483154 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:08:35,299 483155 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:08:35,299 483155 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:08:35,299 483155 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:08:35,299 483155 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:08:35,331 483187 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:08:35,331 483187 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:08:35,333 483189 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:08:35,335 483191 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:08:35,337 483193 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:08:35,337 483193 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:08:35,337 483193 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:08:35,337 483193 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:08:35,337 483193 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:08:35,337 483193 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:08:35,338 483194 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:08:35,338 483194 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:08:35,338 483194 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:08:35,338 483194 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:08:35,340 483196 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:08:35,344 483200 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:08:35,345 483201 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00006_Z_001.bmp 2011-04-04 11:08:35,349 483205 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:08:35,394 483250 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:08:35,409 483265 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:08:35,410 483266 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:08:35,410 483266 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:08:35,411 483267 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:08:35,413 483269 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00006_Z_001.bmp 2011-04-04 11:08:35,414 483270 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:08:35,414 483270 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:08:35,415 483271 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:08:35,416 483272 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:08:35,417 483273 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:08:35,452 483308 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:08:35,454 483310 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:08:35,455 483311 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:08:35,456 483312 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:08:35,457 483313 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:08:35,458 483314 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:08:35,459 483315 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:08:35,460 483316 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@19baf0b,Image:0 2011-04-04 11:08:35,461 483317 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@d5fcfe,omero.model.OriginalFile:0 2011-04-04 11:08:35,462 483318 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@1f05076,Pixels:0 2011-04-04 11:08:35,464 483320 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@4df9a0,Channel:0:0 2011-04-04 11:08:35,465 483321 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@146ccac,omero.model.Channel:0:1 2011-04-04 11:08:35,466 483322 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@59fa4,omero.model.Channel:0:2 2011-04-04 11:08:35,467 483323 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@809791,omero.model.FileAnnotation:0:0 2011-04-04 11:08:35,468 483324 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1fc6345,omero.model.LogicalChannel:0:0 2011-04-04 11:08:35,469 483325 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@1654886,omero.model.LogicalChannel:0:1 2011-04-04 11:08:35,473 483329 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@1dea651,omero.model.LogicalChannel:0:2 2011-04-04 11:08:35,474 483330 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:08:35,504 483360 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:08:35,506 483362 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:08:35,508 483364 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:08:35,509 483365 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:08:35,510 483366 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:08:35,562 483418 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7821 2011-04-04 11:08:35,563 483419 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:08:35,583 483439 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:08:35,995 483851 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:08:36,280 484136 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:08:36,525 484381 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:08:36,526 484382 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:08:36,935 484791 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:08:36,936 484792 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:08:37,075 484931 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:08:37,076 484932 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:08:37,095 484951 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:08:44,224 492080 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:08:48,325 496181 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:08:48,326 496182 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00007_Z_001.bmp 2011-04-04 11:08:48,329 496185 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00007_Z_001.bmp) 2011-04-04 11:08:48,330 496186 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:08:48,338 496194 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:08:48,340 496196 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:08:48,340 496196 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:08:48,342 496198 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:08:48,342 496198 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:08:48,343 496199 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:08:48,343 496199 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:08:48,343 496199 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:08:48,343 496199 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:08:48,343 496199 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:08:48,344 496200 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:08:48,344 496200 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:08:48,344 496200 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:08:48,344 496200 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:08:48,345 496201 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:08:48,345 496201 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:08:48,347 496203 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:08:48,349 496205 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:08:48,349 496205 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:08:48,349 496205 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:08:48,349 496205 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:08:48,349 496205 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:08:48,349 496205 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:08:48,349 496205 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:08:48,350 496206 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:08:48,350 496206 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:08:48,350 496206 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:08:48,350 496206 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:08:48,351 496207 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:08:48,352 496208 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:08:48,352 496208 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00007_Z_001.bmp 2011-04-04 11:08:48,396 496252 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:08:48,402 496258 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:08:48,404 496260 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:08:48,404 496260 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:08:48,405 496261 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:08:48,405 496261 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:08:48,406 496262 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00007_Z_001.bmp 2011-04-04 11:08:48,406 496262 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:08:48,411 496267 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:08:48,411 496267 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:08:48,412 496268 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:08:48,413 496269 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:08:48,413 496269 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:08:48,414 496270 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:08:48,414 496270 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:08:48,415 496271 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:08:48,415 496271 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:08:48,416 496272 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:08:48,416 496272 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:08:48,417 496273 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@1110f31,Image:0 2011-04-04 11:08:48,417 496273 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@1f87254,omero.model.OriginalFile:0 2011-04-04 11:08:48,418 496274 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@1e67cdb,Pixels:0 2011-04-04 11:08:48,418 496274 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@19658fe,Channel:0:0 2011-04-04 11:08:48,419 496275 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@3c5fd5,omero.model.Channel:0:1 2011-04-04 11:08:48,420 496276 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@94a05c,omero.model.Channel:0:2 2011-04-04 11:08:48,420 496276 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@1dcd49d,omero.model.FileAnnotation:0:0 2011-04-04 11:08:48,450 496306 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@6313e1,omero.model.LogicalChannel:0:0 2011-04-04 11:08:48,451 496307 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@1553d18,omero.model.LogicalChannel:0:1 2011-04-04 11:08:48,455 496311 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@1a5d193,omero.model.LogicalChannel:0:2 2011-04-04 11:08:48,455 496311 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:08:48,456 496312 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:08:48,461 496317 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:08:48,461 496317 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:08:48,466 496322 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:08:48,467 496323 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:08:48,524 496380 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7822 2011-04-04 11:08:48,525 496381 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:08:48,534 496390 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:08:48,973 496829 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:08:49,226 497082 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:08:49,488 497344 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:08:49,488 497344 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:08:49,918 497774 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:08:49,919 497775 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:08:50,121 497977 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:08:50,122 497978 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:08:50,129 497985 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:09:01,856 509712 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:09:01,858 509714 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00008_Z_001.bmp 2011-04-04 11:09:01,862 509718 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00008_Z_001.bmp) 2011-04-04 11:09:01,862 509718 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:09:01,874 509730 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:09:01,876 509732 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:09:01,877 509733 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:09:01,879 509735 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:09:01,879 509735 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:09:01,879 509735 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:09:01,879 509735 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:09:01,879 509735 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:09:01,880 509736 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:09:01,880 509736 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:09:01,880 509736 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:09:01,880 509736 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:09:01,880 509736 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:09:01,880 509736 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:09:01,881 509737 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:09:01,882 509738 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:09:01,884 509740 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:09:01,886 509742 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:09:01,886 509742 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:09:01,886 509742 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:09:01,886 509742 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:09:01,886 509742 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:09:01,886 509742 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:09:01,886 509742 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:09:01,887 509743 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:09:01,887 509743 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:09:01,887 509743 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:09:01,887 509743 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:09:01,888 509744 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:09:01,889 509745 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:09:01,889 509745 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00008_Z_001.bmp 2011-04-04 11:09:01,939 509795 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:09:01,989 509845 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:09:02,004 509860 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:09:02,005 509861 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:09:02,005 509861 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:09:02,006 509862 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:09:02,007 509863 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00008_Z_001.bmp 2011-04-04 11:09:02,007 509863 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:09:02,008 509864 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:09:02,008 509864 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:09:02,009 509865 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:09:02,009 509865 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:09:02,010 509866 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:09:02,011 509867 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:09:02,012 509868 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:09:02,013 509869 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:09:02,013 509869 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:09:02,014 509870 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:09:02,015 509871 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:09:02,016 509872 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@175870a,Image:0 2011-04-04 11:09:02,017 509873 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@e44dd3,omero.model.OriginalFile:0 2011-04-04 11:09:02,018 509874 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@1b092ae,Pixels:0 2011-04-04 11:09:02,021 509877 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@dea8b3,Channel:0:0 2011-04-04 11:09:02,022 509878 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@278a47,omero.model.Channel:0:1 2011-04-04 11:09:02,023 509879 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@12f68b8,omero.model.Channel:0:2 2011-04-04 11:09:02,026 509882 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@195ba08,omero.model.FileAnnotation:0:0 2011-04-04 11:09:02,026 509882 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1194a34,omero.model.LogicalChannel:0:0 2011-04-04 11:09:02,027 509883 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@1dd1c39,omero.model.LogicalChannel:0:1 2011-04-04 11:09:02,028 509884 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@11e9eb,omero.model.LogicalChannel:0:2 2011-04-04 11:09:02,033 509889 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:09:02,033 509889 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:09:02,064 509920 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:09:02,066 509922 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:09:02,066 509922 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:09:02,067 509923 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:09:02,119 509975 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7823 2011-04-04 11:09:02,119 509975 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:09:02,133 509989 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:09:02,716 510572 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:09:02,958 510814 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:09:03,214 511070 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:09:03,215 511071 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:09:03,633 511489 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:09:03,635 511491 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:09:03,810 511666 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:09:03,811 511667 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:09:03,822 511678 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:09:15,010 522866 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:09:15,011 522867 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00009_Z_001.bmp 2011-04-04 11:09:15,016 522872 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00009_Z_001.bmp) 2011-04-04 11:09:15,016 522872 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:09:15,027 522883 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:09:15,029 522885 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:09:15,030 522886 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:09:15,031 522887 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:09:15,032 522888 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:09:15,032 522888 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:09:15,032 522888 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:09:15,032 522888 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:09:15,032 522888 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:09:15,033 522889 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:09:15,033 522889 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:09:15,033 522889 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:09:15,033 522889 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:09:15,033 522889 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:09:15,035 522891 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:09:15,036 522892 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:09:15,038 522894 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:09:15,042 522898 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:09:15,042 522898 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:09:15,042 522898 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:09:15,042 522898 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:09:15,042 522898 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:09:15,043 522899 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:09:15,043 522899 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:09:15,043 522899 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:09:15,043 522899 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:09:15,043 522899 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:09:15,044 522900 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:09:15,045 522901 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:09:15,045 522901 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:09:15,046 522902 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00009_Z_001.bmp 2011-04-04 11:09:15,104 522960 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:09:15,129 522985 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:09:15,153 523009 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:09:15,154 523010 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:09:15,154 523010 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:09:15,155 523011 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:09:15,156 523012 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00009_Z_001.bmp 2011-04-04 11:09:15,157 523013 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:09:15,159 523015 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:09:15,159 523015 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:09:15,160 523016 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:09:15,161 523017 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:09:15,161 523017 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:09:15,162 523018 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:09:15,163 523019 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:09:15,164 523020 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:09:15,165 523021 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:09:15,169 523025 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:09:15,170 523026 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:09:15,197 523053 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@1cb1278,Image:0 2011-04-04 11:09:15,199 523055 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@6076c4,omero.model.OriginalFile:0 2011-04-04 11:09:15,200 523056 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@df0c3a,Pixels:0 2011-04-04 11:09:15,200 523056 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@158fd70,Channel:0:0 2011-04-04 11:09:15,201 523057 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@93068a,omero.model.Channel:0:1 2011-04-04 11:09:15,203 523059 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@37c7ee,omero.model.Channel:0:2 2011-04-04 11:09:15,204 523060 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@13596e0,omero.model.FileAnnotation:0:0 2011-04-04 11:09:15,209 523065 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@140109f,omero.model.LogicalChannel:0:0 2011-04-04 11:09:15,210 523066 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@178820c,omero.model.LogicalChannel:0:1 2011-04-04 11:09:15,235 523091 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@de1f47,omero.model.LogicalChannel:0:2 2011-04-04 11:09:15,240 523096 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:09:15,240 523096 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:09:15,265 523121 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:09:15,266 523122 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:09:15,267 523123 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:09:15,268 523124 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:09:15,319 523175 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7824 2011-04-04 11:09:15,320 523176 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:09:15,329 523185 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:09:15,680 523536 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:09:15,926 523782 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:09:16,151 524007 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:09:16,152 524008 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:09:16,584 524440 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:09:16,585 524441 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:09:16,740 524596 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:09:16,741 524597 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:09:16,765 524621 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:09:28,498 536354 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:09:28,499 536355 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00010_Z_001.bmp 2011-04-04 11:09:28,570 536426 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00010_Z_001.bmp) 2011-04-04 11:09:28,570 536426 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:09:28,579 536435 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:09:28,580 536436 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:09:28,581 536437 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:09:28,583 536439 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:09:28,583 536439 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:09:28,583 536439 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:09:28,583 536439 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:09:28,583 536439 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:09:28,584 536440 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:09:28,584 536440 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:09:28,584 536440 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:09:28,584 536440 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:09:28,584 536440 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:09:28,584 536440 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:09:28,585 536441 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:09:28,585 536441 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:09:28,587 536443 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:09:28,588 536444 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:09:28,588 536444 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:09:28,588 536444 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:09:28,589 536445 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:09:28,589 536445 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:09:28,589 536445 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:09:28,589 536445 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:09:28,589 536445 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:09:28,589 536445 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:09:28,589 536445 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:09:28,590 536446 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:09:28,590 536446 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:09:28,591 536447 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:09:28,592 536448 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00010_Z_001.bmp 2011-04-04 11:09:28,593 536449 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:09:28,612 536468 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:09:28,613 536469 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:09:28,640 536496 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:09:28,640 536496 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:09:28,642 536498 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:09:28,643 536499 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00010_Z_001.bmp 2011-04-04 11:09:28,643 536499 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:09:28,644 536500 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:09:28,645 536501 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:09:28,646 536502 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:09:28,650 536506 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:09:28,675 536531 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:09:28,677 536533 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:09:28,677 536533 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:09:28,678 536534 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:09:28,679 536535 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:09:28,680 536536 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:09:28,680 536536 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:09:28,681 536537 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@13be416,Image:0 2011-04-04 11:09:28,681 536537 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@12f8a71,omero.model.OriginalFile:0 2011-04-04 11:09:28,682 536538 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@ffce21,Pixels:0 2011-04-04 11:09:28,682 536538 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@112ce69,Channel:0:0 2011-04-04 11:09:28,683 536539 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@b2fd30,omero.model.Channel:0:1 2011-04-04 11:09:28,683 536539 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@13f866,omero.model.Channel:0:2 2011-04-04 11:09:28,684 536540 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@15960fd,omero.model.FileAnnotation:0:0 2011-04-04 11:09:28,684 536540 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@15bf05f,omero.model.LogicalChannel:0:0 2011-04-04 11:09:28,685 536541 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@7f65f2,omero.model.LogicalChannel:0:1 2011-04-04 11:09:28,685 536541 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@3b96bb,omero.model.LogicalChannel:0:2 2011-04-04 11:09:28,686 536542 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:09:28,686 536542 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:09:28,687 536543 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:09:28,687 536543 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:09:28,688 536544 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:09:28,688 536544 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:09:28,743 536599 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7825 2011-04-04 11:09:28,743 536599 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:09:28,758 536614 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:09:29,122 536978 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:09:29,412 537268 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:09:29,638 537494 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:09:29,638 537494 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:09:30,074 537930 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:09:30,074 537930 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:09:30,229 538085 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:09:30,229 538085 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:09:30,237 538093 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:09:41,420 549276 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:09:41,421 549277 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00011_Z_001.bmp 2011-04-04 11:09:41,454 549310 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00011_Z_001.bmp) 2011-04-04 11:09:41,454 549310 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:09:41,470 549326 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:09:41,473 549329 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:09:41,473 549329 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:09:41,475 549331 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:09:41,475 549331 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:09:41,475 549331 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:09:41,475 549331 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:09:41,475 549331 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:09:41,475 549331 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:09:41,476 549332 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:09:41,476 549332 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:09:41,476 549332 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:09:41,476 549332 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:09:41,476 549332 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:09:41,485 549341 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:09:41,485 549341 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:09:41,491 549347 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:09:41,495 549351 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:09:41,495 549351 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:09:41,495 549351 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:09:41,495 549351 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:09:41,495 549351 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:09:41,495 549351 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:09:41,495 549351 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:09:41,496 549352 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:09:41,496 549352 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:09:41,496 549352 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:09:41,496 549352 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:09:41,498 549354 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:09:41,503 549359 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:09:41,507 549363 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00011_Z_001.bmp 2011-04-04 11:09:41,513 549369 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:09:41,519 549375 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:09:41,519 549375 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:09:41,524 549380 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:09:41,524 549380 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:09:41,525 549381 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:09:41,525 549381 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00011_Z_001.bmp 2011-04-04 11:09:41,526 549382 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:09:41,526 549382 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:09:41,527 549383 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:09:41,527 549383 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:09:41,528 549384 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:09:41,528 549384 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:09:41,529 549385 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:09:41,529 549385 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:09:41,530 549386 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:09:41,531 549387 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:09:41,531 549387 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:09:41,532 549388 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:09:41,532 549388 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@8aaed5,Image:0 2011-04-04 11:09:41,533 549389 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@f98ce0,omero.model.OriginalFile:0 2011-04-04 11:09:41,533 549389 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@10a098,Pixels:0 2011-04-04 11:09:41,534 549390 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@c9dee3,Channel:0:0 2011-04-04 11:09:41,534 549390 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@174331c,omero.model.Channel:0:1 2011-04-04 11:09:41,535 549391 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@181c87,omero.model.Channel:0:2 2011-04-04 11:09:41,565 549421 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@c21095,omero.model.FileAnnotation:0:0 2011-04-04 11:09:41,566 549422 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@277bd2,omero.model.LogicalChannel:0:0 2011-04-04 11:09:41,566 549422 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@d6866f,omero.model.LogicalChannel:0:1 2011-04-04 11:09:41,567 549423 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@1c8d400,omero.model.LogicalChannel:0:2 2011-04-04 11:09:41,568 549424 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:09:41,568 549424 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:09:41,569 549425 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:09:41,569 549425 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:09:41,570 549426 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:09:41,570 549426 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:09:41,625 549481 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7826 2011-04-04 11:09:41,625 549481 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:09:41,636 549492 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:09:41,983 549839 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:09:42,233 550089 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:09:42,470 550326 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:09:42,471 550327 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:09:42,899 550755 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:09:42,900 550756 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:09:43,057 550913 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:09:43,058 550914 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:09:43,066 550922 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:09:44,229 552085 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:09:54,851 562707 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:09:54,851 562707 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00012_Z_001.bmp 2011-04-04 11:09:54,911 562767 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00012_Z_001.bmp) 2011-04-04 11:09:54,911 562767 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:09:54,921 562777 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:09:54,921 562777 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:09:54,921 562777 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:09:54,921 562777 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:09:54,921 562777 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:09:54,921 562777 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:09:54,921 562777 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:09:54,921 562777 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:09:54,921 562777 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:09:54,921 562777 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:09:54,921 562777 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:09:54,921 562777 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:09:54,921 562777 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:09:54,921 562777 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:09:54,921 562777 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:09:54,931 562787 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:09:54,931 562787 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:09:54,941 562797 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:09:54,941 562797 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:09:54,941 562797 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:09:54,941 562797 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:09:54,941 562797 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:09:54,941 562797 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:09:54,941 562797 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:09:54,941 562797 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:09:54,941 562797 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:09:54,941 562797 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:09:54,941 562797 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:09:54,941 562797 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:09:54,951 562807 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:09:54,951 562807 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00012_Z_001.bmp 2011-04-04 11:09:54,961 562817 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:09:54,961 562817 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:09:54,961 562817 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:09:54,971 562827 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:09:54,971 562827 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:09:54,971 562827 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:09:54,971 562827 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00012_Z_001.bmp 2011-04-04 11:09:54,971 562827 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:09:54,971 562827 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:09:54,971 562827 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:09:54,971 562827 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:09:54,971 562827 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:09:54,971 562827 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:09:54,971 562827 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:09:54,971 562827 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:09:54,971 562827 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:09:54,971 562827 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:09:54,971 562827 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:09:54,971 562827 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:09:54,981 562837 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@143e7b7,Image:0 2011-04-04 11:09:54,981 562837 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@68a2cc,omero.model.OriginalFile:0 2011-04-04 11:09:54,981 562837 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@163f47e,Pixels:0 2011-04-04 11:09:54,981 562837 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@88ee,Channel:0:0 2011-04-04 11:09:54,981 562837 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@19546ee,omero.model.Channel:0:1 2011-04-04 11:09:54,981 562837 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@18c3efb,omero.model.Channel:0:2 2011-04-04 11:09:54,981 562837 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@6ca837,omero.model.FileAnnotation:0:0 2011-04-04 11:09:54,981 562837 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@e73750,omero.model.LogicalChannel:0:0 2011-04-04 11:09:54,981 562837 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@13e9963,omero.model.LogicalChannel:0:1 2011-04-04 11:09:54,981 562837 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@199ef99,omero.model.LogicalChannel:0:2 2011-04-04 11:09:54,981 562837 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:09:54,981 562837 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:09:54,981 562837 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:09:54,981 562837 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:09:55,011 562867 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:09:55,021 562877 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:09:55,071 562927 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7827 2011-04-04 11:09:55,071 562927 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:09:55,081 562937 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:09:55,448 563304 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:09:55,684 563540 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:09:55,922 563778 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:09:55,923 563779 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:09:56,354 564210 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:09:56,355 564211 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:09:56,509 564365 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:09:56,510 564366 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:09:56,512 564368 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:10:07,786 575642 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:10:07,787 575643 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00013_Z_001.bmp 2011-04-04 11:10:07,882 575738 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00013_Z_001.bmp) 2011-04-04 11:10:07,882 575738 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:10:07,891 575747 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:10:07,894 575750 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:10:07,894 575750 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:10:07,898 575754 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:10:07,898 575754 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:10:07,898 575754 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:10:07,898 575754 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:10:07,898 575754 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:10:07,899 575755 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:10:07,899 575755 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:10:07,899 575755 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:10:07,899 575755 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:10:07,899 575755 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:10:07,899 575755 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:10:07,910 575766 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:10:07,911 575767 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:10:07,921 575777 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:10:07,928 575784 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:10:07,928 575784 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:10:07,928 575784 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:10:07,928 575784 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:10:07,928 575784 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:10:07,929 575785 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:10:07,929 575785 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:10:07,929 575785 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:10:07,929 575785 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:10:07,930 575786 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:10:07,930 575786 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:10:07,934 575790 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:10:07,935 575791 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:10:07,936 575792 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00013_Z_001.bmp 2011-04-04 11:10:07,938 575794 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:10:07,948 575804 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:10:07,952 575808 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:10:07,953 575809 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:10:07,954 575810 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:10:07,955 575811 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:10:07,955 575811 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00013_Z_001.bmp 2011-04-04 11:10:07,960 575816 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:10:07,961 575817 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:10:07,961 575817 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:10:07,961 575817 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:10:07,962 575818 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:10:07,963 575819 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:10:07,963 575819 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:10:07,964 575820 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:10:07,965 575821 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:10:07,966 575822 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:10:07,966 575822 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:10:07,967 575823 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:10:07,967 575823 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@14d3b51,Image:0 2011-04-04 11:10:07,968 575824 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@1575c7e,omero.model.OriginalFile:0 2011-04-04 11:10:07,968 575824 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@554210,Pixels:0 2011-04-04 11:10:07,969 575825 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@18ada25,Channel:0:0 2011-04-04 11:10:07,969 575825 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@a3cf3e,omero.model.Channel:0:1 2011-04-04 11:10:07,970 575826 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@21151e,omero.model.Channel:0:2 2011-04-04 11:10:07,970 575826 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@1635a89,omero.model.FileAnnotation:0:0 2011-04-04 11:10:07,971 575827 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1cd0037,omero.model.LogicalChannel:0:0 2011-04-04 11:10:07,971 575827 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@124527f,omero.model.LogicalChannel:0:1 2011-04-04 11:10:07,972 575828 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@4daa7d,omero.model.LogicalChannel:0:2 2011-04-04 11:10:07,972 575828 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:10:08,004 575860 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:10:08,005 575861 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:10:08,006 575862 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:10:08,009 575865 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:10:08,009 575865 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:10:08,055 575911 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7828 2011-04-04 11:10:08,056 575912 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:10:08,069 575925 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:10:08,633 576489 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:10:08,911 576767 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:10:09,178 577034 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:10:09,179 577035 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:10:09,606 577462 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:10:09,607 577463 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:10:09,802 577658 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:10:09,803 577659 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:10:09,813 577669 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:10:21,071 588927 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:10:21,071 588927 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00014_Z_001.bmp 2011-04-04 11:10:21,218 589074 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00014_Z_001.bmp) 2011-04-04 11:10:21,218 589074 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:10:21,225 589081 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:10:21,227 589083 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:10:21,227 589083 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:10:21,229 589085 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:10:21,229 589085 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:10:21,229 589085 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:10:21,229 589085 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:10:21,229 589085 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:10:21,229 589085 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:10:21,229 589085 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:10:21,230 589086 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:10:21,230 589086 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:10:21,230 589086 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:10:21,230 589086 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:10:21,233 589089 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:10:21,239 589095 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:10:21,244 589100 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:10:21,245 589101 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:10:21,245 589101 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:10:21,245 589101 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:10:21,245 589101 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:10:21,246 589102 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:10:21,246 589102 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:10:21,246 589102 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:10:21,247 589103 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:10:21,247 589103 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:10:21,247 589103 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:10:21,247 589103 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:10:21,247 589103 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:10:21,248 589104 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:10:21,248 589104 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00014_Z_001.bmp 2011-04-04 11:10:21,250 589106 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:10:21,281 589137 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:10:21,282 589138 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:10:21,282 589138 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:10:21,283 589139 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:10:21,283 589139 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:10:21,284 589140 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00014_Z_001.bmp 2011-04-04 11:10:21,284 589140 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:10:21,284 589140 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:10:21,285 589141 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:10:21,318 589174 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:10:21,318 589174 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:10:21,319 589175 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:10:21,320 589176 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:10:21,320 589176 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:10:21,322 589178 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:10:21,322 589178 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:10:21,325 589181 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:10:21,325 589181 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:10:21,326 589182 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@f47af3,Image:0 2011-04-04 11:10:21,336 589192 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@1cba727,omero.model.OriginalFile:0 2011-04-04 11:10:21,337 589193 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@1f459c2,Pixels:0 2011-04-04 11:10:21,338 589194 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@7abaab,Channel:0:0 2011-04-04 11:10:21,339 589195 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@1a0a87c,omero.model.Channel:0:1 2011-04-04 11:10:21,339 589195 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@c26acd,omero.model.Channel:0:2 2011-04-04 11:10:21,341 589197 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@44a541,omero.model.FileAnnotation:0:0 2011-04-04 11:10:21,343 589199 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1b24628,omero.model.LogicalChannel:0:0 2011-04-04 11:10:21,344 589200 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@6f3870,omero.model.LogicalChannel:0:1 2011-04-04 11:10:21,344 589200 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@b1a0f9,omero.model.LogicalChannel:0:2 2011-04-04 11:10:21,349 589205 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:10:21,349 589205 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:10:21,350 589206 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:10:21,350 589206 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:10:21,351 589207 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:10:21,351 589207 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:10:21,403 589259 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7829 2011-04-04 11:10:21,404 589260 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:10:21,420 589276 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:10:22,026 589882 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:10:22,267 590123 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:10:22,538 590394 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:10:22,538 590394 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:10:22,961 590817 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:10:22,962 590818 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:10:23,133 590989 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:10:23,134 590990 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:10:23,154 591010 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:10:34,652 602508 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:10:34,653 602509 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00015_Z_001.bmp 2011-04-04 11:10:34,790 602646 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00015_Z_001.bmp) 2011-04-04 11:10:34,790 602646 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:10:34,800 602656 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:10:34,803 602659 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:10:34,803 602659 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:10:34,805 602661 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:10:34,805 602661 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:10:34,805 602661 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:10:34,805 602661 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:10:34,805 602661 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:10:34,806 602662 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:10:34,806 602662 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:10:34,807 602663 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:10:34,807 602663 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:10:34,807 602663 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:10:34,807 602663 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:10:34,818 602674 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:10:34,819 602675 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:10:34,835 602691 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:10:34,837 602693 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:10:34,837 602693 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:10:34,837 602693 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:10:34,837 602693 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:10:34,838 602694 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:10:34,838 602694 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:10:34,838 602694 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:10:34,839 602695 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:10:34,839 602695 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:10:34,839 602695 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:10:34,839 602695 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:10:34,844 602700 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:10:34,845 602701 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:10:34,846 602702 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00015_Z_001.bmp 2011-04-04 11:10:34,854 602710 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:10:34,865 602721 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:10:34,865 602721 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:10:34,867 602723 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:10:34,874 602730 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:10:34,875 602731 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:10:34,875 602731 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00015_Z_001.bmp 2011-04-04 11:10:34,876 602732 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:10:34,877 602733 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:10:34,877 602733 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:10:34,878 602734 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:10:34,879 602735 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:10:34,880 602736 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:10:34,881 602737 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:10:34,882 602738 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:10:34,883 602739 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:10:34,883 602739 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:10:34,884 602740 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:10:34,885 602741 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:10:34,886 602742 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@ad78a2,Image:0 2011-04-04 11:10:34,887 602743 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@117e53b,omero.model.OriginalFile:0 2011-04-04 11:10:34,887 602743 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@272111,Pixels:0 2011-04-04 11:10:34,888 602744 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@115d277,Channel:0:0 2011-04-04 11:10:34,889 602745 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@e4d37f,omero.model.Channel:0:1 2011-04-04 11:10:34,890 602746 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@91772,omero.model.Channel:0:2 2011-04-04 11:10:34,890 602746 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@32069,omero.model.FileAnnotation:0:0 2011-04-04 11:10:34,891 602747 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@ee920,omero.model.LogicalChannel:0:0 2011-04-04 11:10:34,892 602748 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@1222b8e,omero.model.LogicalChannel:0:1 2011-04-04 11:10:34,925 602781 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@1257d30,omero.model.LogicalChannel:0:2 2011-04-04 11:10:34,925 602781 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:10:34,926 602782 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:10:34,927 602783 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:10:34,928 602784 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:10:34,929 602785 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:10:34,929 602785 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:10:34,983 602839 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7830 2011-04-04 11:10:34,983 602839 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:10:34,997 602853 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:10:35,389 603245 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:10:35,648 603504 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:10:35,885 603741 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:10:35,886 603742 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:10:36,323 604179 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:10:36,323 604179 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:10:36,520 604376 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:10:36,521 604377 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:10:36,528 604384 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:10:44,229 612085 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:10:47,695 615551 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:10:47,696 615552 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00016_Z_001.bmp 2011-04-04 11:10:47,900 615756 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00016_Z_001.bmp) 2011-04-04 11:10:47,900 615756 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:10:47,907 615763 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:10:47,909 615765 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:10:47,909 615765 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:10:47,911 615767 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:10:47,912 615768 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:10:47,912 615768 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:10:47,912 615768 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:10:47,912 615768 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:10:47,912 615768 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:10:47,912 615768 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:10:47,913 615769 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:10:47,913 615769 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:10:47,913 615769 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:10:47,913 615769 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:10:47,916 615772 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:10:47,920 615776 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:10:47,925 615781 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:10:47,930 615786 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:10:47,930 615786 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:10:47,930 615786 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:10:47,930 615786 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:10:47,930 615786 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:10:47,930 615786 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:10:47,930 615786 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:10:47,931 615787 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:10:47,931 615787 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:10:47,931 615787 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:10:47,931 615787 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:10:47,933 615789 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:10:47,938 615794 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:10:47,943 615799 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00016_Z_001.bmp 2011-04-04 11:10:47,949 615805 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:10:47,956 615812 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:10:47,957 615813 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:10:47,958 615814 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:10:47,963 615819 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:10:47,964 615820 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:10:47,964 615820 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00016_Z_001.bmp 2011-04-04 11:10:47,965 615821 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:10:47,965 615821 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:10:47,966 615822 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:10:47,967 615823 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:10:47,967 615823 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:10:47,968 615824 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:10:47,969 615825 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:10:47,969 615825 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:10:47,970 615826 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:10:47,971 615827 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:10:47,971 615827 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:10:47,972 615828 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:10:47,973 615829 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@113eb9c,Image:0 2011-04-04 11:10:47,973 615829 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@14f83d1,omero.model.OriginalFile:0 2011-04-04 11:10:47,974 615830 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@b48e23,Pixels:0 2011-04-04 11:10:47,974 615830 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@ca6f53,Channel:0:0 2011-04-04 11:10:47,975 615831 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@1b35955,omero.model.Channel:0:1 2011-04-04 11:10:47,976 615832 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@1d48679,omero.model.Channel:0:2 2011-04-04 11:10:47,976 615832 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@115676d,omero.model.FileAnnotation:0:0 2011-04-04 11:10:47,977 615833 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1ff5160,omero.model.LogicalChannel:0:0 2011-04-04 11:10:47,977 615833 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@15c0102,omero.model.LogicalChannel:0:1 2011-04-04 11:10:47,978 615834 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@129ae9b,omero.model.LogicalChannel:0:2 2011-04-04 11:10:48,020 615876 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:10:48,021 615877 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:10:48,021 615877 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:10:48,022 615878 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:10:48,023 615879 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:10:48,023 615879 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:10:48,133 615989 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7831 2011-04-04 11:10:48,134 615990 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:10:48,149 616005 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:10:48,548 616404 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:10:48,813 616669 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:10:49,049 616905 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:10:49,050 616906 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:10:49,468 617324 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:10:49,468 617324 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:10:49,666 617522 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:10:49,667 617523 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:10:49,675 617531 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:11:01,059 628915 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:11:01,059 628915 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00017_Z_001.bmp 2011-04-04 11:11:01,143 628999 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00017_Z_001.bmp) 2011-04-04 11:11:01,143 628999 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:11:01,151 629007 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:11:01,153 629009 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:11:01,153 629009 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:11:01,155 629011 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:11:01,155 629011 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:11:01,155 629011 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:11:01,155 629011 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:11:01,155 629011 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:11:01,155 629011 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:11:01,155 629011 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:11:01,156 629012 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:11:01,156 629012 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:11:01,156 629012 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:11:01,156 629012 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:11:01,160 629016 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:11:01,165 629021 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:11:01,172 629028 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:11:01,174 629030 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:11:01,174 629030 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:11:01,174 629030 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:11:01,174 629030 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:11:01,174 629030 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:11:01,175 629031 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:11:01,175 629031 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:11:01,175 629031 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:11:01,175 629031 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:11:01,175 629031 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:11:01,175 629031 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:11:01,178 629034 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:11:01,183 629039 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:11:01,187 629043 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00017_Z_001.bmp 2011-04-04 11:11:01,188 629044 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:11:01,194 629050 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:11:01,196 629052 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:11:01,201 629057 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:11:01,202 629058 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:11:01,202 629058 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:11:01,203 629059 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00017_Z_001.bmp 2011-04-04 11:11:01,203 629059 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:11:01,203 629059 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:11:01,204 629060 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:11:01,209 629065 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:11:01,209 629065 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:11:01,210 629066 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:11:01,211 629067 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:11:01,212 629068 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:11:01,213 629069 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:11:01,213 629069 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:11:01,214 629070 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:11:01,214 629070 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:11:01,215 629071 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@1f42fbb,Image:0 2011-04-04 11:11:01,215 629071 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@1afcf20,omero.model.OriginalFile:0 2011-04-04 11:11:01,215 629071 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@131477b,Pixels:0 2011-04-04 11:11:01,216 629072 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@8f83a9,Channel:0:0 2011-04-04 11:11:01,216 629072 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@ce0197,omero.model.Channel:0:1 2011-04-04 11:11:01,217 629073 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@1277ffa,omero.model.Channel:0:2 2011-04-04 11:11:01,217 629073 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@1d67b41,omero.model.FileAnnotation:0:0 2011-04-04 11:11:01,218 629074 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@e3262f,omero.model.LogicalChannel:0:0 2011-04-04 11:11:01,218 629074 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@1c9e4d2,omero.model.LogicalChannel:0:1 2011-04-04 11:11:01,219 629075 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@368400,omero.model.LogicalChannel:0:2 2011-04-04 11:11:01,219 629075 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:11:01,220 629076 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:11:01,220 629076 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:11:01,221 629077 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:11:01,221 629077 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:11:01,221 629077 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:11:01,273 629129 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7832 2011-04-04 11:11:01,274 629130 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:11:01,281 629137 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:11:01,724 629580 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:11:01,984 629840 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:11:02,292 630148 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:11:02,293 630149 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:11:02,738 630594 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:11:02,742 630598 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:11:02,892 630748 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:11:02,893 630749 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:11:02,901 630757 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:11:14,091 641947 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:11:14,101 641957 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00018_Z_001.bmp 2011-04-04 11:11:14,161 642017 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00018_Z_001.bmp) 2011-04-04 11:11:14,161 642017 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:11:14,171 642027 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:11:14,171 642027 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:11:14,171 642027 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:11:14,171 642027 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:11:14,171 642027 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:11:14,171 642027 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:11:14,171 642027 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:11:14,171 642027 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:11:14,171 642027 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:11:14,171 642027 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:11:14,171 642027 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:11:14,171 642027 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:11:14,171 642027 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:11:14,171 642027 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:11:14,181 642037 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:11:14,181 642037 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:11:14,181 642037 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:11:14,181 642037 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:11:14,181 642037 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:11:14,181 642037 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:11:14,181 642037 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:11:14,181 642037 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:11:14,181 642037 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:11:14,181 642037 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:11:14,181 642037 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:11:14,181 642037 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:11:14,181 642037 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:11:14,181 642037 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:11:14,181 642037 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:11:14,181 642037 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:11:14,181 642037 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00018_Z_001.bmp 2011-04-04 11:11:14,181 642037 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:11:14,191 642047 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:11:14,191 642047 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:11:14,191 642047 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:11:14,201 642057 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:11:14,201 642057 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:11:14,201 642057 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00018_Z_001.bmp 2011-04-04 11:11:14,201 642057 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:11:14,201 642057 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:11:14,201 642057 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:11:14,201 642057 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:11:14,201 642057 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:11:14,201 642057 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:11:14,201 642057 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:11:14,201 642057 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:11:14,201 642057 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:11:14,201 642057 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:11:14,211 642067 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:11:14,211 642067 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:11:14,211 642067 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@5d8897,Image:0 2011-04-04 11:11:14,211 642067 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@1be346c,omero.model.OriginalFile:0 2011-04-04 11:11:14,211 642067 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@120f96a,Pixels:0 2011-04-04 11:11:14,211 642067 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@117aadf,Channel:0:0 2011-04-04 11:11:14,211 642067 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@9a288b,omero.model.Channel:0:1 2011-04-04 11:11:14,211 642067 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@128d1f4,omero.model.Channel:0:2 2011-04-04 11:11:14,211 642067 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@1891732,omero.model.FileAnnotation:0:0 2011-04-04 11:11:14,211 642067 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1f08b14,omero.model.LogicalChannel:0:0 2011-04-04 11:11:14,211 642067 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@aa39d6,omero.model.LogicalChannel:0:1 2011-04-04 11:11:14,211 642067 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@161e946,omero.model.LogicalChannel:0:2 2011-04-04 11:11:14,211 642067 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:11:14,211 642067 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:11:14,211 642067 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:11:14,211 642067 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:11:14,211 642067 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:11:14,211 642067 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:11:14,281 642137 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7833 2011-04-04 11:11:14,291 642147 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:11:14,301 642157 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:11:14,956 642812 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:11:15,233 643089 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:11:15,541 643397 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:11:15,542 643398 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:11:15,976 643832 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:11:15,977 643833 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:11:16,128 643984 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:11:16,129 643985 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:11:16,135 643991 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:11:27,381 655237 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:11:27,381 655237 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00019_Z_001.bmp 2011-04-04 11:11:27,460 655316 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00019_Z_001.bmp) 2011-04-04 11:11:27,460 655316 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:11:27,468 655324 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:11:27,469 655325 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:11:27,470 655326 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:11:27,472 655328 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:11:27,472 655328 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:11:27,472 655328 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:11:27,472 655328 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:11:27,472 655328 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:11:27,473 655329 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:11:27,473 655329 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:11:27,474 655330 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:11:27,474 655330 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:11:27,474 655330 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:11:27,474 655330 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:11:27,480 655336 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:11:27,491 655347 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:11:27,493 655349 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:11:27,499 655355 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:11:27,499 655355 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:11:27,499 655355 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:11:27,499 655355 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:11:27,499 655355 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:11:27,499 655355 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:11:27,499 655355 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:11:27,500 655356 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:11:27,500 655356 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:11:27,500 655356 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:11:27,500 655356 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:11:27,502 655358 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:11:27,511 655367 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:11:27,512 655368 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00019_Z_001.bmp 2011-04-04 11:11:27,514 655370 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:11:27,528 655384 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:11:27,529 655385 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:11:27,530 655386 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:11:27,530 655386 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:11:27,531 655387 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:11:27,531 655387 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00019_Z_001.bmp 2011-04-04 11:11:27,537 655393 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:11:27,538 655394 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:11:27,538 655394 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:11:27,539 655395 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:11:27,622 655478 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:11:27,622 655478 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:11:27,622 655478 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:11:27,622 655478 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:11:27,637 655493 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:11:27,637 655493 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:11:27,637 655493 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:11:27,637 655493 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:11:27,637 655493 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@d37d44,Image:0 2011-04-04 11:11:27,637 655493 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@882100,omero.model.OriginalFile:0 2011-04-04 11:11:27,637 655493 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@38ddcc,Pixels:0 2011-04-04 11:11:27,637 655493 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@1d1011a,Channel:0:0 2011-04-04 11:11:27,637 655493 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@15df3f,omero.model.Channel:0:1 2011-04-04 11:11:27,637 655493 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@1e54e00,omero.model.Channel:0:2 2011-04-04 11:11:27,669 655525 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@bbaccd,omero.model.FileAnnotation:0:0 2011-04-04 11:11:27,669 655525 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@c34fd9,omero.model.LogicalChannel:0:0 2011-04-04 11:11:27,669 655525 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@130e03a,omero.model.LogicalChannel:0:1 2011-04-04 11:11:27,669 655525 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@808512,omero.model.LogicalChannel:0:2 2011-04-04 11:11:27,669 655525 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:11:27,669 655525 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:11:27,669 655525 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:11:27,684 655540 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:11:27,684 655540 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:11:27,684 655540 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:11:27,731 655587 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7834 2011-04-04 11:11:27,731 655587 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:11:27,747 655603 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:11:28,122 655978 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:11:28,381 656237 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:11:28,665 656521 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:11:28,666 656522 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:11:29,084 656940 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:11:29,085 656941 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:11:29,268 657124 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:11:29,269 657125 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:11:29,282 657138 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:11:40,507 668363 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:11:40,509 668365 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00020_Z_001.bmp 2011-04-04 11:11:40,608 668464 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00020_Z_001.bmp) 2011-04-04 11:11:40,608 668464 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:11:40,617 668473 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:11:40,619 668475 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:11:40,619 668475 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:11:40,621 668477 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:11:40,621 668477 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:11:40,621 668477 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:11:40,621 668477 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:11:40,621 668477 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:11:40,621 668477 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:11:40,621 668477 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:11:40,622 668478 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:11:40,622 668478 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:11:40,622 668478 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:11:40,622 668478 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:11:40,625 668481 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:11:40,629 668485 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:11:40,633 668489 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:11:40,637 668493 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:11:40,637 668493 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:11:40,637 668493 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:11:40,637 668493 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:11:40,637 668493 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:11:40,637 668493 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:11:40,637 668493 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:11:40,638 668494 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:11:40,638 668494 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:11:40,638 668494 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:11:40,638 668494 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:11:40,641 668497 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:11:40,641 668497 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:11:40,642 668498 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00020_Z_001.bmp 2011-04-04 11:11:40,644 668500 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:11:40,651 668507 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:11:40,655 668511 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:11:40,656 668512 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:11:40,656 668512 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:11:40,657 668513 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:11:40,657 668513 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00020_Z_001.bmp 2011-04-04 11:11:40,657 668513 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:11:40,658 668514 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:11:40,658 668514 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:11:40,659 668515 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:11:40,659 668515 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:11:40,660 668516 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:11:40,660 668516 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:11:40,661 668517 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:11:40,661 668517 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:11:40,662 668518 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:11:40,662 668518 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:11:40,663 668519 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:11:40,663 668519 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@1074a5f,Image:0 2011-04-04 11:11:40,664 668520 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@1273085,omero.model.OriginalFile:0 2011-04-04 11:11:40,664 668520 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@1450701,Pixels:0 2011-04-04 11:11:40,665 668521 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@efe617,Channel:0:0 2011-04-04 11:11:40,668 668524 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@10e3a00,omero.model.Channel:0:1 2011-04-04 11:11:40,668 668524 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@c68663,omero.model.Channel:0:2 2011-04-04 11:11:40,669 668525 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@4dd5a1,omero.model.FileAnnotation:0:0 2011-04-04 11:11:40,670 668526 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@8f5f75,omero.model.LogicalChannel:0:0 2011-04-04 11:11:40,670 668526 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@1879eb8,omero.model.LogicalChannel:0:1 2011-04-04 11:11:40,739 668595 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@1a53800,omero.model.LogicalChannel:0:2 2011-04-04 11:11:40,739 668595 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:11:40,739 668595 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:11:40,739 668595 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:11:40,739 668595 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:11:40,739 668595 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:11:40,739 668595 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:11:40,786 668642 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7835 2011-04-04 11:11:40,786 668642 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:11:40,796 668652 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:11:41,166 669022 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:11:41,420 669276 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:11:41,667 669523 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:11:41,668 669524 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:11:42,118 669974 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:11:42,119 669975 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:11:42,300 670156 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:11:42,300 670156 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:11:42,310 670166 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:11:44,231 672087 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:11:53,506 681362 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:11:53,507 681363 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00021_Z_001.bmp 2011-04-04 11:11:53,587 681443 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00021_Z_001.bmp) 2011-04-04 11:11:53,587 681443 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:11:53,595 681451 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:11:53,597 681453 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:11:53,597 681453 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:11:53,599 681455 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:11:53,599 681455 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:11:53,599 681455 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:11:53,599 681455 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:11:53,599 681455 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:11:53,600 681456 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:11:53,600 681456 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:11:53,600 681456 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:11:53,600 681456 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:11:53,600 681456 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:11:53,600 681456 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:11:53,604 681460 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:11:53,610 681466 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:11:53,612 681468 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:11:53,624 681480 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:11:53,624 681480 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:11:53,624 681480 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:11:53,624 681480 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:11:53,624 681480 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:11:53,624 681480 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:11:53,624 681480 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:11:53,625 681481 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:11:53,625 681481 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:11:53,625 681481 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:11:53,625 681481 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:11:53,626 681482 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:11:53,631 681487 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:11:53,635 681491 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00021_Z_001.bmp 2011-04-04 11:11:53,646 681502 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:11:53,661 681517 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:11:53,661 681517 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:11:53,662 681518 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:11:53,662 681518 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:11:53,663 681519 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:11:53,663 681519 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00021_Z_001.bmp 2011-04-04 11:11:53,664 681520 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:11:53,664 681520 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:11:53,665 681521 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:11:53,665 681521 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:11:53,666 681522 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:11:53,666 681522 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:11:53,667 681523 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:11:53,667 681523 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:11:53,668 681524 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:11:53,668 681524 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:11:53,669 681525 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:11:53,669 681525 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:11:53,670 681526 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@1abc91d,Image:0 2011-04-04 11:11:53,671 681527 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@11c7eb2,omero.model.OriginalFile:0 2011-04-04 11:11:53,705 681561 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@fe83e5,Pixels:0 2011-04-04 11:11:53,705 681561 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@1188439,Channel:0:0 2011-04-04 11:11:53,706 681562 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@672bb3,omero.model.Channel:0:1 2011-04-04 11:11:53,706 681562 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@d03e03,omero.model.Channel:0:2 2011-04-04 11:11:53,707 681563 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@ea01d7,omero.model.FileAnnotation:0:0 2011-04-04 11:11:53,707 681563 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@3e162d,omero.model.LogicalChannel:0:0 2011-04-04 11:11:53,708 681564 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@c04fc1,omero.model.LogicalChannel:0:1 2011-04-04 11:11:53,708 681564 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@1c142c2,omero.model.LogicalChannel:0:2 2011-04-04 11:11:53,709 681565 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:11:53,709 681565 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:11:53,710 681566 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:11:53,710 681566 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:11:53,711 681567 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:11:53,711 681567 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:11:53,763 681619 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7836 2011-04-04 11:11:53,764 681620 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:11:53,775 681631 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:11:54,163 682019 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:11:54,416 682272 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:11:54,656 682512 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:11:54,657 682513 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:11:55,097 682953 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:11:55,098 682954 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:11:55,260 683116 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:11:55,261 683117 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:11:55,269 683125 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:12:06,700 694556 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:12:06,701 694557 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00022_Z_001.bmp 2011-04-04 11:12:06,843 694699 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00022_Z_001.bmp) 2011-04-04 11:12:06,843 694699 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:12:06,849 694705 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:12:06,851 694707 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:12:06,851 694707 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:12:06,853 694709 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:12:06,853 694709 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:12:06,853 694709 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:12:06,853 694709 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:12:06,853 694709 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:12:06,854 694710 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:12:06,854 694710 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:12:06,854 694710 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:12:06,854 694710 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:12:06,854 694710 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:12:06,854 694710 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:12:06,856 694712 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:12:06,861 694717 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:12:06,867 694723 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:12:06,871 694727 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:12:06,872 694728 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:12:06,872 694728 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:12:06,872 694728 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:12:06,872 694728 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:12:06,872 694728 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:12:06,872 694728 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:12:06,873 694729 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:12:06,873 694729 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:12:06,873 694729 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:12:06,873 694729 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:12:06,876 694732 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:12:06,880 694736 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:12:06,885 694741 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00022_Z_001.bmp 2011-04-04 11:12:06,890 694746 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:12:06,897 694753 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:12:06,902 694758 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:12:06,904 694760 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:12:06,904 694760 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:12:06,905 694761 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:12:06,905 694761 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00022_Z_001.bmp 2011-04-04 11:12:06,906 694762 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:12:06,906 694762 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:12:06,907 694763 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:12:06,907 694763 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:12:06,908 694764 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:12:06,908 694764 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:12:06,909 694765 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:12:06,909 694765 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:12:06,910 694766 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:12:06,910 694766 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:12:06,911 694767 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:12:06,911 694767 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:12:06,912 694768 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@ae8764,Image:0 2011-04-04 11:12:06,912 694768 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@f96845,omero.model.OriginalFile:0 2011-04-04 11:12:06,913 694769 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@102d72d,Pixels:0 2011-04-04 11:12:06,913 694769 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@a5b721,Channel:0:0 2011-04-04 11:12:06,914 694770 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@16d383a,omero.model.Channel:0:1 2011-04-04 11:12:06,914 694770 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@2cec33,omero.model.Channel:0:2 2011-04-04 11:12:06,915 694771 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@167a209,omero.model.FileAnnotation:0:0 2011-04-04 11:12:06,915 694771 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1c4ed65,omero.model.LogicalChannel:0:0 2011-04-04 11:12:06,916 694772 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@5b7025,omero.model.LogicalChannel:0:1 2011-04-04 11:12:06,949 694805 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@c751fd,omero.model.LogicalChannel:0:2 2011-04-04 11:12:06,949 694805 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:12:06,950 694806 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:12:06,951 694807 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:12:06,951 694807 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:12:06,952 694808 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:12:06,952 694808 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:12:07,008 694864 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7837 2011-04-04 11:12:07,009 694865 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:12:07,020 694876 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:12:07,367 695223 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:12:07,616 695472 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:12:07,844 695700 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:12:07,845 695701 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:12:08,282 696138 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:12:08,283 696139 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:12:08,445 696301 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:12:08,446 696302 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:12:08,452 696308 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:12:19,660 707516 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:12:19,660 707516 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00023_Z_001.bmp 2011-04-04 11:12:19,742 707598 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00023_Z_001.bmp) 2011-04-04 11:12:19,742 707598 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:12:19,742 707598 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:12:19,742 707598 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:12:19,742 707598 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:12:19,752 707608 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:12:19,752 707608 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:12:19,752 707608 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:12:19,752 707608 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:12:19,752 707608 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:12:19,752 707608 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:12:19,752 707608 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:12:19,752 707608 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:12:19,752 707608 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:12:19,752 707608 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:12:19,752 707608 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:12:19,752 707608 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:12:19,762 707618 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:12:19,762 707618 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:12:19,762 707618 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:12:19,762 707618 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:12:19,762 707618 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:12:19,762 707618 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:12:19,762 707618 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:12:19,762 707618 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:12:19,762 707618 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:12:19,762 707618 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:12:19,762 707618 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:12:19,762 707618 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:12:19,762 707618 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:12:19,772 707628 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:12:19,772 707628 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:12:19,782 707638 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00023_Z_001.bmp 2011-04-04 11:12:19,782 707638 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:12:19,802 707658 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:12:19,802 707658 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:12:19,802 707658 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:12:19,802 707658 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:12:19,802 707658 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:12:19,802 707658 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00023_Z_001.bmp 2011-04-04 11:12:19,802 707658 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:12:19,802 707658 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:12:19,802 707658 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:12:19,802 707658 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:12:19,802 707658 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:12:19,802 707658 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:12:19,802 707658 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:12:19,802 707658 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:12:19,812 707668 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:12:19,812 707668 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:12:19,812 707668 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:12:19,812 707668 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:12:19,812 707668 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@c31c7d,Image:0 2011-04-04 11:12:19,812 707668 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@168442e,omero.model.OriginalFile:0 2011-04-04 11:12:19,812 707668 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@585fa9,Pixels:0 2011-04-04 11:12:19,812 707668 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@3cf525,Channel:0:0 2011-04-04 11:12:19,812 707668 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@ba3671,omero.model.Channel:0:1 2011-04-04 11:12:19,812 707668 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@9c7650,omero.model.Channel:0:2 2011-04-04 11:12:19,812 707668 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@af28ad,omero.model.FileAnnotation:0:0 2011-04-04 11:12:19,812 707668 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@a8f58d,omero.model.LogicalChannel:0:0 2011-04-04 11:12:19,812 707668 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@1b1ebe5,omero.model.LogicalChannel:0:1 2011-04-04 11:12:19,812 707668 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@c0335d,omero.model.LogicalChannel:0:2 2011-04-04 11:12:19,822 707678 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:12:19,822 707678 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:12:19,822 707678 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:12:19,822 707678 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:12:19,822 707678 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:12:19,822 707678 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:12:19,872 707728 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7838 2011-04-04 11:12:19,892 707748 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:12:19,902 707758 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:12:20,312 708168 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:12:20,563 708419 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:12:20,818 708674 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:12:20,819 708675 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:12:21,255 709111 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:12:21,256 709112 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:12:21,423 709279 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:12:21,424 709280 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:12:21,434 709290 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:12:32,774 720630 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:12:32,775 720631 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00024_Z_001.bmp 2011-04-04 11:12:32,841 720697 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00024_Z_001.bmp) 2011-04-04 11:12:32,841 720697 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:12:32,848 720704 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:12:32,850 720706 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:12:32,850 720706 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:12:32,851 720707 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:12:32,851 720707 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:12:32,851 720707 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:12:32,851 720707 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:12:32,851 720707 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:12:32,852 720708 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:12:32,852 720708 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:12:32,852 720708 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:12:32,852 720708 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:12:32,852 720708 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:12:32,852 720708 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:12:32,855 720711 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:12:32,860 720716 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:12:32,866 720722 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:12:32,871 720727 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:12:32,871 720727 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:12:32,871 720727 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:12:32,872 720728 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:12:32,872 720728 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:12:32,872 720728 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:12:32,872 720728 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:12:32,872 720728 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:12:32,872 720728 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:12:32,872 720728 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:12:32,873 720729 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:12:32,875 720731 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:12:32,886 720742 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:12:32,886 720742 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00024_Z_001.bmp 2011-04-04 11:12:32,892 720748 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:12:32,899 720755 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:12:32,900 720756 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:12:32,901 720757 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:12:32,905 720761 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:12:32,906 720762 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:12:32,906 720762 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00024_Z_001.bmp 2011-04-04 11:12:32,907 720763 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:12:32,907 720763 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:12:32,908 720764 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:12:32,908 720764 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:12:32,909 720765 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:12:32,910 720766 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:12:32,911 720767 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:12:32,911 720767 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:12:32,912 720768 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:12:32,913 720769 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:12:32,915 720771 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:12:32,916 720772 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:12:32,916 720772 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@1fe7b92,Image:0 2011-04-04 11:12:32,917 720773 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@c4f9e6,omero.model.OriginalFile:0 2011-04-04 11:12:32,918 720774 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@341db1,Pixels:0 2011-04-04 11:12:32,918 720774 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@109dafc,Channel:0:0 2011-04-04 11:12:32,920 720776 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@86a602,omero.model.Channel:0:1 2011-04-04 11:12:32,921 720777 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@f379ef,omero.model.Channel:0:2 2011-04-04 11:12:32,922 720778 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@160a2f1,omero.model.FileAnnotation:0:0 2011-04-04 11:12:32,922 720778 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1ba9f7,omero.model.LogicalChannel:0:0 2011-04-04 11:12:32,923 720779 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@e13c84,omero.model.LogicalChannel:0:1 2011-04-04 11:12:32,923 720779 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@1787338,omero.model.LogicalChannel:0:2 2011-04-04 11:12:32,923 720779 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:12:32,924 720780 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:12:32,925 720781 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:12:32,927 720783 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:12:32,927 720783 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:12:32,928 720784 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:12:32,980 720836 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7839 2011-04-04 11:12:32,983 720839 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:12:32,990 720846 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:12:33,392 721248 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:12:33,650 721506 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:12:33,913 721769 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:12:33,914 721770 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:12:34,359 722215 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:12:34,369 722225 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:12:34,521 722377 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:12:34,522 722378 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:12:34,526 722382 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:12:44,231 732087 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:12:45,712 733568 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:12:45,713 733569 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00025_Z_001.bmp 2011-04-04 11:12:45,810 733666 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_01_image_00025_Z_001.bmp) 2011-04-04 11:12:45,810 733666 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:12:45,831 733687 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:12:45,834 733690 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:12:45,834 733690 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:12:45,837 733693 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:12:45,837 733693 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:12:45,837 733693 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:12:45,837 733693 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:12:45,837 733693 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:12:45,838 733694 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:12:45,838 733694 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:12:45,838 733694 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:12:45,838 733694 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:12:45,838 733694 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:12:45,839 733695 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:12:45,844 733700 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:12:45,849 733705 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:12:45,860 733716 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:12:45,862 733718 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:12:45,862 733718 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:12:45,862 733718 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:12:45,862 733718 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:12:45,862 733718 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:12:45,863 733719 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:12:45,863 733719 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:12:45,863 733719 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:12:45,863 733719 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:12:45,863 733719 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:12:45,863 733719 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:12:45,864 733720 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:12:45,865 733721 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:12:45,865 733721 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00025_Z_001.bmp 2011-04-04 11:12:45,867 733723 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:12:45,875 733731 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:12:45,914 733770 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:12:45,915 733771 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:12:45,916 733772 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:12:45,916 733772 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:12:45,916 733772 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_01_image_00025_Z_001.bmp 2011-04-04 11:12:45,918 733774 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:12:45,919 733775 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:12:45,920 733776 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:12:45,920 733776 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:12:45,921 733777 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:12:45,921 733777 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:12:45,922 733778 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:12:45,923 733779 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:12:45,923 733779 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:12:45,924 733780 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:12:45,925 733781 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:12:45,925 733781 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:12:45,926 733782 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@1da89a0,Image:0 2011-04-04 11:12:45,927 733783 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@cd0d2e,omero.model.OriginalFile:0 2011-04-04 11:12:45,927 733783 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@15ed7e7,Pixels:0 2011-04-04 11:12:45,928 733784 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@e6da1e,Channel:0:0 2011-04-04 11:12:45,928 733784 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@1fcb00e,omero.model.Channel:0:1 2011-04-04 11:12:45,929 733785 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@1ada1e0,omero.model.Channel:0:2 2011-04-04 11:12:45,930 733786 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@1b5080a,omero.model.FileAnnotation:0:0 2011-04-04 11:12:45,932 733788 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@fc7ceb,omero.model.LogicalChannel:0:0 2011-04-04 11:12:45,932 733788 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@f02db7,omero.model.LogicalChannel:0:1 2011-04-04 11:12:45,933 733789 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@23c5ff,omero.model.LogicalChannel:0:2 2011-04-04 11:12:45,934 733790 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:12:45,934 733790 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:12:45,934 733790 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:12:45,935 733791 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:12:45,935 733791 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:12:45,936 733792 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:12:45,991 733847 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7840 2011-04-04 11:12:46,003 733859 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:12:46,011 733867 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:12:46,453 734309 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:12:46,687 734543 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:12:46,974 734830 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:12:46,975 734831 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:12:47,427 735283 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:12:47,428 735284 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:12:47,614 735470 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:12:47,615 735471 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:12:47,630 735486 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:12:59,109 746965 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:12:59,109 746965 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00001_Z_001.bmp 2011-04-04 11:12:59,169 747025 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00001_Z_001.bmp) 2011-04-04 11:12:59,169 747025 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:12:59,176 747032 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:12:59,178 747034 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:12:59,178 747034 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:12:59,179 747035 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:12:59,179 747035 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:12:59,179 747035 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:12:59,180 747036 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:12:59,180 747036 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:12:59,181 747037 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:12:59,181 747037 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:12:59,181 747037 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:12:59,181 747037 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:12:59,181 747037 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:12:59,181 747037 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:12:59,182 747038 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:12:59,194 747050 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:12:59,196 747052 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:12:59,197 747053 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:12:59,197 747053 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:12:59,197 747053 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:12:59,197 747053 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:12:59,197 747053 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:12:59,198 747054 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:12:59,198 747054 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:12:59,198 747054 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:12:59,198 747054 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:12:59,198 747054 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:12:59,198 747054 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:12:59,200 747056 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:12:59,201 747057 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:12:59,202 747058 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00001_Z_001.bmp 2011-04-04 11:12:59,204 747060 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:12:59,217 747073 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:12:59,219 747075 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:12:59,219 747075 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:12:59,220 747076 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:12:59,220 747076 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:12:59,221 747077 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00001_Z_001.bmp 2011-04-04 11:12:59,221 747077 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:12:59,222 747078 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:12:59,222 747078 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:12:59,222 747078 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:12:59,223 747079 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:12:59,223 747079 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:12:59,224 747080 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:12:59,224 747080 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:12:59,225 747081 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:12:59,226 747082 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:12:59,226 747082 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:12:59,226 747082 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:12:59,233 747089 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@14a4fd2,Image:0 2011-04-04 11:12:59,234 747090 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@2daf7a,omero.model.OriginalFile:0 2011-04-04 11:12:59,236 747092 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@1ed364c,Pixels:0 2011-04-04 11:12:59,236 747092 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@ece7a6,Channel:0:0 2011-04-04 11:12:59,237 747093 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@1ea5711,omero.model.Channel:0:1 2011-04-04 11:12:59,241 747097 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@a35880,omero.model.Channel:0:2 2011-04-04 11:12:59,242 747098 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@4686bc,omero.model.FileAnnotation:0:0 2011-04-04 11:12:59,242 747098 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@16ca577,omero.model.LogicalChannel:0:0 2011-04-04 11:12:59,243 747099 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@60e7d2,omero.model.LogicalChannel:0:1 2011-04-04 11:12:59,244 747100 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@121671e,omero.model.LogicalChannel:0:2 2011-04-04 11:12:59,244 747100 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:12:59,245 747101 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:12:59,245 747101 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:12:59,245 747101 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:12:59,246 747102 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:12:59,246 747102 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:12:59,310 747166 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7841 2011-04-04 11:12:59,321 747177 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:12:59,335 747191 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:12:59,735 747591 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:12:59,975 747831 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:13:00,225 748081 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:13:00,227 748083 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:13:00,659 748515 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:13:00,660 748516 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:13:00,816 748672 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:13:00,817 748673 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:13:00,821 748677 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:13:12,036 759892 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:13:12,037 759893 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00002_Z_001.bmp 2011-04-04 11:13:12,167 760023 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00002_Z_001.bmp) 2011-04-04 11:13:12,167 760023 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:13:12,176 760032 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:13:12,178 760034 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:13:12,179 760035 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:13:12,180 760036 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:13:12,180 760036 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:13:12,180 760036 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:13:12,180 760036 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:13:12,180 760036 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:13:12,181 760037 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:13:12,181 760037 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:13:12,181 760037 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:13:12,182 760038 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:13:12,182 760038 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:13:12,182 760038 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:13:12,194 760050 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:13:12,204 760060 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:13:12,206 760062 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:13:12,210 760066 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:13:12,210 760066 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:13:12,210 760066 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:13:12,210 760066 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:13:12,210 760066 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:13:12,211 760067 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:13:12,211 760067 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:13:12,211 760067 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:13:12,211 760067 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:13:12,211 760067 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:13:12,212 760068 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:13:12,214 760070 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:13:12,229 760085 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:13:12,229 760085 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00002_Z_001.bmp 2011-04-04 11:13:12,230 760086 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:13:12,237 760093 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:13:12,238 760094 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:13:12,239 760095 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:13:12,239 760095 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:13:12,240 760096 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:13:12,240 760096 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00002_Z_001.bmp 2011-04-04 11:13:12,241 760097 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:13:12,242 760098 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:13:12,242 760098 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:13:12,243 760099 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:13:12,248 760104 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:13:12,248 760104 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:13:12,258 760114 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:13:12,258 760114 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:13:12,259 760115 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:13:12,260 760116 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:13:12,260 760116 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:13:12,260 760116 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:13:12,303 760159 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@1ed2ccd,Image:0 2011-04-04 11:13:12,305 760161 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@1e31f72,omero.model.OriginalFile:0 2011-04-04 11:13:12,306 760162 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@1d740c,Pixels:0 2011-04-04 11:13:12,306 760162 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@606032,Channel:0:0 2011-04-04 11:13:12,308 760164 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@1ae7fff,omero.model.Channel:0:1 2011-04-04 11:13:12,308 760164 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@149f848,omero.model.Channel:0:2 2011-04-04 11:13:12,309 760165 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@14b7042,omero.model.FileAnnotation:0:0 2011-04-04 11:13:12,358 760214 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@5e8368,omero.model.LogicalChannel:0:0 2011-04-04 11:13:12,358 760214 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@141fedb,omero.model.LogicalChannel:0:1 2011-04-04 11:13:12,364 760220 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@1a13047,omero.model.LogicalChannel:0:2 2011-04-04 11:13:12,365 760221 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:13:12,365 760221 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:13:12,366 760222 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:13:12,366 760222 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:13:12,367 760223 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:13:12,367 760223 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:13:12,423 760279 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7842 2011-04-04 11:13:12,424 760280 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:13:12,431 760287 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:13:12,835 760691 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:13:13,106 760962 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:13:13,350 761206 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:13:13,351 761207 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:13:13,792 761648 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:13:13,804 761660 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:13:13,998 761854 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:13:13,998 761854 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:13:14,002 761858 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:13:25,160 773016 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:13:25,161 773017 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00003_Z_001.bmp 2011-04-04 11:13:25,264 773120 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00003_Z_001.bmp) 2011-04-04 11:13:25,264 773120 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:13:25,272 773128 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:13:25,274 773130 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:13:25,274 773130 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:13:25,276 773132 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:13:25,277 773133 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:13:25,277 773133 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:13:25,277 773133 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:13:25,277 773133 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:13:25,277 773133 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:13:25,277 773133 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:13:25,278 773134 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:13:25,278 773134 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:13:25,278 773134 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:13:25,278 773134 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:13:25,283 773139 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:13:25,288 773144 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:13:25,293 773149 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:13:25,298 773154 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:13:25,298 773154 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:13:25,298 773154 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:13:25,298 773154 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:13:25,298 773154 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:13:25,299 773155 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:13:25,299 773155 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:13:25,299 773155 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:13:25,299 773155 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:13:25,299 773155 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:13:25,299 773155 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:13:25,302 773158 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:13:25,306 773162 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:13:25,311 773167 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00003_Z_001.bmp 2011-04-04 11:13:25,316 773172 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:13:25,320 773176 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:13:25,322 773178 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:13:25,322 773178 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:13:25,323 773179 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:13:25,323 773179 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:13:25,324 773180 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00003_Z_001.bmp 2011-04-04 11:13:25,324 773180 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:13:25,325 773181 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:13:25,325 773181 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:13:25,326 773182 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:13:25,326 773182 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:13:25,332 773188 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:13:25,332 773188 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:13:25,333 773189 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:13:25,334 773190 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:13:25,334 773190 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:13:25,335 773191 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:13:25,335 773191 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:13:25,336 773192 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@198df1f,Image:0 2011-04-04 11:13:25,336 773192 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@e796ff,omero.model.OriginalFile:0 2011-04-04 11:13:25,337 773193 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@1c6bb75,Pixels:0 2011-04-04 11:13:25,338 773194 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@b2c603,Channel:0:0 2011-04-04 11:13:25,338 773194 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@1fee11,omero.model.Channel:0:1 2011-04-04 11:13:25,339 773195 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@2a9403,omero.model.Channel:0:2 2011-04-04 11:13:25,339 773195 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@1176de6,omero.model.FileAnnotation:0:0 2011-04-04 11:13:25,340 773196 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@14f223f,omero.model.LogicalChannel:0:0 2011-04-04 11:13:25,340 773196 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@4d273a,omero.model.LogicalChannel:0:1 2011-04-04 11:13:25,341 773197 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@688aeb,omero.model.LogicalChannel:0:2 2011-04-04 11:13:25,341 773197 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:13:25,342 773198 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:13:25,342 773198 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:13:25,342 773198 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:13:25,343 773199 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:13:25,343 773199 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:13:25,410 773266 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7843 2011-04-04 11:13:25,410 773266 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:13:25,422 773278 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:13:25,790 773646 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:13:26,050 773906 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:13:26,291 774147 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:13:26,292 774148 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:13:26,756 774612 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:13:26,757 774613 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:13:26,937 774793 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:13:26,938 774794 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:13:26,947 774803 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:13:38,185 786041 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:13:38,186 786042 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00004_Z_001.bmp 2011-04-04 11:13:38,277 786133 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00004_Z_001.bmp) 2011-04-04 11:13:38,277 786133 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:13:38,287 786143 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:13:38,288 786144 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:13:38,289 786145 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:13:38,290 786146 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:13:38,290 786146 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:13:38,290 786146 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:13:38,290 786146 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:13:38,290 786146 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:13:38,291 786147 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:13:38,291 786147 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:13:38,291 786147 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:13:38,291 786147 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:13:38,291 786147 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:13:38,291 786147 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:13:38,296 786152 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:13:38,297 786153 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:13:38,304 786160 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:13:38,305 786161 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:13:38,305 786161 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:13:38,305 786161 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:13:38,305 786161 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:13:38,305 786161 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:13:38,306 786162 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:13:38,306 786162 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:13:38,306 786162 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:13:38,306 786162 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:13:38,307 786163 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:13:38,307 786163 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:13:38,311 786167 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:13:38,325 786181 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:13:38,327 786183 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00004_Z_001.bmp 2011-04-04 11:13:38,331 786187 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:13:38,339 786195 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:13:38,339 786195 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:13:38,344 786200 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:13:38,345 786201 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:13:38,345 786201 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:13:38,346 786202 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00004_Z_001.bmp 2011-04-04 11:13:38,346 786202 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:13:38,346 786202 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:13:38,347 786203 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:13:38,347 786203 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:13:38,348 786204 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:13:38,349 786205 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:13:38,349 786205 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:13:38,350 786206 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:13:38,351 786207 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:13:38,352 786208 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:13:38,352 786208 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:13:38,353 786209 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:13:38,353 786209 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@bc7a23,Image:0 2011-04-04 11:13:38,354 786210 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@9d7837,omero.model.OriginalFile:0 2011-04-04 11:13:38,355 786211 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@2ad191,Pixels:0 2011-04-04 11:13:38,355 786211 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@1cfd020,Channel:0:0 2011-04-04 11:13:38,356 786212 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@1324de2,omero.model.Channel:0:1 2011-04-04 11:13:38,356 786212 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@a8e5ac,omero.model.Channel:0:2 2011-04-04 11:13:38,356 786212 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@bed4c1,omero.model.FileAnnotation:0:0 2011-04-04 11:13:38,357 786213 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1cf0283,omero.model.LogicalChannel:0:0 2011-04-04 11:13:38,357 786213 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@c5a196,omero.model.LogicalChannel:0:1 2011-04-04 11:13:38,358 786214 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@76a247,omero.model.LogicalChannel:0:2 2011-04-04 11:13:38,358 786214 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:13:38,359 786215 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:13:38,359 786215 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:13:38,360 786216 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:13:38,360 786216 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:13:38,361 786217 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:13:38,413 786269 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7844 2011-04-04 11:13:38,413 786269 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:13:38,424 786280 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:13:38,826 786682 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:13:39,097 786953 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:13:39,333 787189 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:13:39,334 787190 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:13:39,792 787648 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:13:39,792 787648 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:13:39,952 787808 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:13:39,952 787808 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:13:39,962 787818 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:13:44,587 792443 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:13:51,205 799061 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:13:51,206 799062 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00005_Z_001.bmp 2011-04-04 11:13:51,276 799132 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00005_Z_001.bmp) 2011-04-04 11:13:51,276 799132 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:13:51,285 799141 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:13:51,288 799144 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:13:51,288 799144 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:13:51,289 799145 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:13:51,289 799145 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:13:51,289 799145 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:13:51,290 799146 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:13:51,290 799146 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:13:51,290 799146 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:13:51,290 799146 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:13:51,290 799146 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:13:51,290 799146 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:13:51,290 799146 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:13:51,291 799147 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:13:51,291 799147 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:13:51,292 799148 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:13:51,294 799150 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:13:51,295 799151 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:13:51,295 799151 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:13:51,295 799151 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:13:51,295 799151 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:13:51,295 799151 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:13:51,300 799156 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:13:51,300 799156 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:13:51,300 799156 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:13:51,300 799156 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:13:51,300 799156 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:13:51,301 799157 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:13:51,301 799157 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:13:51,302 799158 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:13:51,302 799158 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00005_Z_001.bmp 2011-04-04 11:13:51,303 799159 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:13:51,315 799171 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:13:51,315 799171 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:13:51,316 799172 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:13:51,316 799172 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:13:51,317 799173 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:13:51,317 799173 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00005_Z_001.bmp 2011-04-04 11:13:51,318 799174 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:13:51,318 799174 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:13:51,319 799175 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:13:51,319 799175 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:13:51,320 799176 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:13:51,320 799176 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:13:51,321 799177 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:13:51,322 799178 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:13:51,323 799179 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:13:51,325 799181 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:13:51,326 799182 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:13:51,327 799183 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:13:51,327 799183 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@aa780b,Image:0 2011-04-04 11:13:51,350 799206 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@1533ff4,omero.model.OriginalFile:0 2011-04-04 11:13:51,378 799234 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@ca5a40,Pixels:0 2011-04-04 11:13:51,379 799235 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@6382a6,Channel:0:0 2011-04-04 11:13:51,393 799249 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@1766af0,omero.model.Channel:0:1 2011-04-04 11:13:51,394 799250 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@1ae1081,omero.model.Channel:0:2 2011-04-04 11:13:51,394 799250 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@13c3750,omero.model.FileAnnotation:0:0 2011-04-04 11:13:51,395 799251 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@11938ea,omero.model.LogicalChannel:0:0 2011-04-04 11:13:51,395 799251 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@105a8c9,omero.model.LogicalChannel:0:1 2011-04-04 11:13:51,396 799252 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@15b5376,omero.model.LogicalChannel:0:2 2011-04-04 11:13:51,396 799252 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:13:51,397 799253 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:13:51,397 799253 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:13:51,398 799254 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:13:51,399 799255 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:13:51,400 799256 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:13:51,453 799309 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7845 2011-04-04 11:13:51,453 799309 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:13:51,460 799316 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:13:51,875 799731 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:13:52,128 799984 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:13:52,380 800236 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:13:52,384 800240 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:13:53,031 800887 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:13:53,032 800888 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:13:53,201 801057 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:13:53,201 801057 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:13:53,206 801062 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:14:04,371 812227 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:14:04,372 812228 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00006_Z_001.bmp 2011-04-04 11:14:04,725 812581 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00006_Z_001.bmp) 2011-04-04 11:14:04,725 812581 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:14:04,733 812589 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:14:04,735 812591 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:14:04,735 812591 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:14:04,737 812593 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:14:04,738 812594 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:14:04,738 812594 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:14:04,738 812594 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:14:04,738 812594 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:14:04,738 812594 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:14:04,738 812594 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:14:04,739 812595 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:14:04,739 812595 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:14:04,739 812595 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:14:04,740 812596 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:14:04,745 812601 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:14:04,756 812612 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:14:04,758 812614 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:14:04,760 812616 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:14:04,760 812616 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:14:04,761 812617 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:14:04,761 812617 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:14:04,761 812617 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:14:04,761 812617 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:14:04,761 812617 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:14:04,762 812618 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:14:04,762 812618 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:14:04,762 812618 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:14:04,764 812620 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:14:04,775 812631 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:14:04,776 812632 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:14:04,794 812650 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00006_Z_001.bmp 2011-04-04 11:14:04,796 812652 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:14:04,804 812660 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:14:04,804 812660 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:14:04,805 812661 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:14:04,805 812661 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:14:04,806 812662 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:14:04,807 812663 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00006_Z_001.bmp 2011-04-04 11:14:04,807 812663 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:14:04,815 812671 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:14:04,815 812671 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:14:04,816 812672 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:14:04,816 812672 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:14:04,820 812676 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:14:04,821 812677 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:14:04,822 812678 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:14:04,823 812679 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:14:04,824 812680 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:14:04,825 812681 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:14:04,825 812681 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:14:04,826 812682 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@14256df,Image:0 2011-04-04 11:14:04,826 812682 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@57607d,omero.model.OriginalFile:0 2011-04-04 11:14:04,827 812683 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@13b5500,Pixels:0 2011-04-04 11:14:04,827 812683 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@537c91,Channel:0:0 2011-04-04 11:14:04,841 812697 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@61a2e7,omero.model.Channel:0:1 2011-04-04 11:14:04,842 812698 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@113ea1a,omero.model.Channel:0:2 2011-04-04 11:14:04,843 812699 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@1ebb6f2,omero.model.FileAnnotation:0:0 2011-04-04 11:14:04,843 812699 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@523fa1,omero.model.LogicalChannel:0:0 2011-04-04 11:14:04,879 812735 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@127a891,omero.model.LogicalChannel:0:1 2011-04-04 11:14:04,880 812736 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@1ba0fda,omero.model.LogicalChannel:0:2 2011-04-04 11:14:04,880 812736 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:14:04,881 812737 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:14:04,882 812738 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:14:04,882 812738 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:14:04,882 812738 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:14:04,883 812739 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:14:04,941 812797 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7846 2011-04-04 11:14:04,941 812797 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:14:04,963 812819 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:14:05,454 813310 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:14:05,690 813546 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:14:05,931 813787 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:14:05,932 813788 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:14:06,388 814244 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:14:06,403 814259 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:14:06,557 814413 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:14:06,558 814414 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:14:06,565 814421 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:14:18,348 826204 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:14:18,349 826205 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00007_Z_001.bmp 2011-04-04 11:14:18,445 826301 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00007_Z_001.bmp) 2011-04-04 11:14:18,445 826301 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:14:18,458 826314 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:14:18,459 826315 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:14:18,460 826316 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:14:18,461 826317 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:14:18,461 826317 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:14:18,461 826317 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:14:18,461 826317 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:14:18,461 826317 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:14:18,462 826318 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:14:18,477 826333 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:14:18,493 826349 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:14:18,493 826349 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:14:18,493 826349 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:14:18,493 826349 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:14:18,493 826349 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:14:18,493 826349 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:14:18,493 826349 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:14:18,508 826364 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:14:18,508 826364 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:14:18,508 826364 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:14:18,508 826364 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:14:18,508 826364 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:14:18,508 826364 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:14:18,508 826364 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:14:18,508 826364 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:14:18,508 826364 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:14:18,508 826364 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:14:18,508 826364 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:14:18,508 826364 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:14:18,508 826364 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:14:18,509 826365 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00007_Z_001.bmp 2011-04-04 11:14:18,509 826365 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:14:18,509 826365 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:14:18,509 826365 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:14:18,509 826365 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:14:18,511 826367 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:14:18,511 826367 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:14:18,512 826368 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00007_Z_001.bmp 2011-04-04 11:14:18,512 826368 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:14:18,513 826369 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:14:18,513 826369 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:14:18,519 826375 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:14:18,520 826376 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:14:18,521 826377 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:14:18,521 826377 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:14:18,522 826378 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:14:18,523 826379 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:14:18,524 826380 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:14:18,525 826381 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:14:18,526 826382 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:14:18,527 826383 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@471b39,Image:0 2011-04-04 11:14:18,528 826384 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@1a1ed04,omero.model.OriginalFile:0 2011-04-04 11:14:18,539 826395 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@384d34,Pixels:0 2011-04-04 11:14:18,540 826396 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@184292c,Channel:0:0 2011-04-04 11:14:18,541 826397 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@1fc5524,omero.model.Channel:0:1 2011-04-04 11:14:18,542 826398 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@312c50,omero.model.Channel:0:2 2011-04-04 11:14:18,542 826398 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@c0cd7d,omero.model.FileAnnotation:0:0 2011-04-04 11:14:18,543 826399 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@ea79f8,omero.model.LogicalChannel:0:0 2011-04-04 11:14:18,543 826399 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@1e7d484,omero.model.LogicalChannel:0:1 2011-04-04 11:14:18,544 826400 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@1254e59,omero.model.LogicalChannel:0:2 2011-04-04 11:14:18,544 826400 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:14:18,544 826400 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:14:18,546 826402 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:14:18,546 826402 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:14:18,546 826402 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:14:18,547 826403 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:14:18,604 826460 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7847 2011-04-04 11:14:18,605 826461 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:14:18,612 826468 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:14:18,997 826853 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:14:19,255 827111 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:14:19,509 827365 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:14:19,510 827366 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:14:19,920 827776 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:14:19,921 827777 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:14:20,077 827933 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:14:20,078 827934 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:14:20,084 827940 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:14:31,300 839156 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:14:31,301 839157 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00008_Z_001.bmp 2011-04-04 11:14:31,339 839195 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00008_Z_001.bmp) 2011-04-04 11:14:31,339 839195 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:14:31,371 839227 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:14:31,374 839230 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:14:31,374 839230 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:14:31,376 839232 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:14:31,376 839232 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:14:31,376 839232 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:14:31,376 839232 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:14:31,376 839232 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:14:31,376 839232 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:14:31,377 839233 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:14:31,377 839233 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:14:31,377 839233 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:14:31,377 839233 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:14:31,377 839233 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:14:31,387 839243 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:14:31,388 839244 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:14:31,400 839256 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:14:31,402 839258 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:14:31,402 839258 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:14:31,402 839258 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:14:31,403 839259 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:14:31,403 839259 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:14:31,403 839259 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:14:31,403 839259 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:14:31,404 839260 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:14:31,404 839260 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:14:31,404 839260 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:14:31,404 839260 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:14:31,405 839261 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:14:31,406 839262 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:14:31,418 839274 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00008_Z_001.bmp 2011-04-04 11:14:31,420 839276 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:14:31,427 839283 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:14:31,428 839284 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:14:31,429 839285 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:14:31,429 839285 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:14:31,441 839297 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:14:31,442 839298 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00008_Z_001.bmp 2011-04-04 11:14:31,443 839299 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:14:31,443 839299 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:14:31,444 839300 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:14:31,444 839300 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:14:31,445 839301 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:14:31,446 839302 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:14:31,448 839304 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:14:31,449 839305 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:14:31,450 839306 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:14:31,451 839307 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:14:31,452 839308 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:14:31,453 839309 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:14:31,454 839310 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@1d13c39,Image:0 2011-04-04 11:14:31,454 839310 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@1dfee20,omero.model.OriginalFile:0 2011-04-04 11:14:31,455 839311 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@8a6465,Pixels:0 2011-04-04 11:14:31,456 839312 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@6c6b62,Channel:0:0 2011-04-04 11:14:31,457 839313 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@128cbe6,omero.model.Channel:0:1 2011-04-04 11:14:31,457 839313 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@e9ebe1,omero.model.Channel:0:2 2011-04-04 11:14:31,458 839314 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@7d7a04,omero.model.FileAnnotation:0:0 2011-04-04 11:14:31,459 839315 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1f751c9,omero.model.LogicalChannel:0:0 2011-04-04 11:14:31,460 839316 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@1c3dfe,omero.model.LogicalChannel:0:1 2011-04-04 11:14:31,460 839316 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@17286ca,omero.model.LogicalChannel:0:2 2011-04-04 11:14:31,461 839317 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:14:31,461 839317 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:14:31,462 839318 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:14:31,463 839319 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:14:31,463 839319 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:14:31,465 839321 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:14:31,521 839377 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7848 2011-04-04 11:14:31,522 839378 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:14:31,532 839388 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:14:31,972 839828 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:14:32,251 840107 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:14:32,485 840341 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:14:32,486 840342 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:14:32,922 840778 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:14:32,923 840779 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:14:33,097 840953 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:14:33,098 840954 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:14:33,107 840963 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:14:44,576 852432 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:14:44,577 852433 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00009_Z_001.bmp 2011-04-04 11:14:44,589 852445 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:14:44,688 852544 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00009_Z_001.bmp) 2011-04-04 11:14:44,688 852544 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:14:44,697 852553 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:14:44,699 852555 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:14:44,700 852556 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:14:44,703 852559 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:14:44,703 852559 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:14:44,703 852559 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:14:44,703 852559 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:14:44,703 852559 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:14:44,704 852560 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:14:44,704 852560 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:14:44,704 852560 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:14:44,704 852560 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:14:44,704 852560 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:14:44,704 852560 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:14:44,706 852562 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:14:44,711 852567 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:14:44,719 852575 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:14:44,725 852581 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:14:44,725 852581 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:14:44,725 852581 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:14:44,725 852581 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:14:44,725 852581 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:14:44,726 852582 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:14:44,726 852582 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:14:44,727 852583 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:14:44,727 852583 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:14:44,727 852583 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:14:44,727 852583 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:14:44,731 852587 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:14:44,737 852593 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:14:44,744 852600 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00009_Z_001.bmp 2011-04-04 11:14:44,751 852607 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:14:44,762 852618 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:14:44,764 852620 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:14:44,765 852621 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:14:44,766 852622 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:14:44,767 852623 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:14:44,767 852623 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00009_Z_001.bmp 2011-04-04 11:14:44,768 852624 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:14:44,775 852631 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:14:44,775 852631 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:14:44,776 852632 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:14:44,777 852633 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:14:44,779 852635 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:14:44,781 852637 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:14:44,782 852638 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:14:44,783 852639 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:14:44,783 852639 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:14:44,784 852640 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:14:44,786 852642 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:14:44,787 852643 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@302f39,Image:0 2011-04-04 11:14:44,787 852643 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@1f143f1,omero.model.OriginalFile:0 2011-04-04 11:14:44,788 852644 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@2ec7f1,Pixels:0 2011-04-04 11:14:44,790 852646 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@3db223,Channel:0:0 2011-04-04 11:14:44,790 852646 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@14ed400,omero.model.Channel:0:1 2011-04-04 11:14:44,791 852647 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@d522dd,omero.model.Channel:0:2 2011-04-04 11:14:44,792 852648 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@1652020,omero.model.FileAnnotation:0:0 2011-04-04 11:14:44,793 852649 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1854be,omero.model.LogicalChannel:0:0 2011-04-04 11:14:44,794 852650 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@342b99,omero.model.LogicalChannel:0:1 2011-04-04 11:14:44,795 852651 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@18c0b02,omero.model.LogicalChannel:0:2 2011-04-04 11:14:44,795 852651 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:14:44,796 852652 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:14:44,797 852653 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:14:44,798 852654 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:14:44,798 852654 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:14:44,799 852655 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:14:44,853 852709 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7849 2011-04-04 11:14:44,860 852716 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:14:44,867 852723 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:14:45,241 853097 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:14:45,472 853328 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:14:45,725 853581 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:14:45,726 853582 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:14:46,172 854028 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:14:46,173 854029 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:14:46,335 854191 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:14:46,335 854191 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:14:46,344 854200 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:14:57,694 865550 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:14:57,696 865552 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00010_Z_001.bmp 2011-04-04 11:14:57,789 865645 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00010_Z_001.bmp) 2011-04-04 11:14:57,789 865645 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:14:57,797 865653 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:14:57,800 865656 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:14:57,801 865657 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:14:57,804 865660 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:14:57,804 865660 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:14:57,805 865661 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:14:57,806 865662 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:14:57,806 865662 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:14:57,806 865662 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:14:57,806 865662 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:14:57,807 865663 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:14:57,807 865663 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:14:57,807 865663 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:14:57,807 865663 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:14:57,811 865667 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:14:57,819 865675 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:14:57,828 865684 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:14:57,835 865691 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:14:57,835 865691 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:14:57,835 865691 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:14:57,835 865691 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:14:57,835 865691 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:14:57,836 865692 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:14:57,836 865692 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:14:57,836 865692 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:14:57,836 865692 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:14:57,836 865692 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:14:57,836 865692 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:14:57,841 865697 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:14:57,856 865712 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:14:57,856 865712 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00010_Z_001.bmp 2011-04-04 11:14:57,865 865721 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:14:57,875 865731 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:14:57,875 865731 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:14:57,876 865732 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:14:57,876 865732 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:14:57,877 865733 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:14:57,877 865733 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00010_Z_001.bmp 2011-04-04 11:14:57,882 865738 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:14:57,883 865739 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:14:57,883 865739 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:14:57,884 865740 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:14:57,884 865740 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:14:57,885 865741 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:14:57,886 865742 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:14:57,886 865742 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:14:57,887 865743 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:14:57,887 865743 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:14:57,888 865744 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:14:57,888 865744 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:14:57,889 865745 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@2e84e1,Image:0 2011-04-04 11:14:57,889 865745 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@14455b3,omero.model.OriginalFile:0 2011-04-04 11:14:57,890 865746 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@3ac1f2,Pixels:0 2011-04-04 11:14:57,891 865747 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@35cf9c,Channel:0:0 2011-04-04 11:14:57,891 865747 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@f7e5d1,omero.model.Channel:0:1 2011-04-04 11:14:57,892 865748 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@1cd9ab8,omero.model.Channel:0:2 2011-04-04 11:14:57,892 865748 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@1eb9b0d,omero.model.FileAnnotation:0:0 2011-04-04 11:14:57,893 865749 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1ae0c9d,omero.model.LogicalChannel:0:0 2011-04-04 11:14:57,893 865749 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@2acfa2,omero.model.LogicalChannel:0:1 2011-04-04 11:14:57,894 865750 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@134ea95,omero.model.LogicalChannel:0:2 2011-04-04 11:14:57,894 865750 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:14:57,895 865751 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:14:57,895 865751 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:14:57,896 865752 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:14:57,896 865752 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:14:57,896 865752 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:14:57,950 865806 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7850 2011-04-04 11:14:57,950 865806 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:14:57,960 865816 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:14:58,311 866167 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:14:58,552 866408 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:14:58,812 866668 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:14:58,813 866669 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:14:59,243 867099 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:14:59,244 867100 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:14:59,415 867271 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:14:59,416 867272 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:14:59,426 867282 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:15:10,835 878691 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:15:10,836 878692 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00011_Z_001.bmp 2011-04-04 11:15:10,981 878837 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00011_Z_001.bmp) 2011-04-04 11:15:10,981 878837 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:15:10,988 878844 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:15:10,991 878847 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:15:10,991 878847 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:15:10,993 878849 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:15:10,993 878849 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:15:10,993 878849 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:15:10,994 878850 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:15:10,994 878850 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:15:10,994 878850 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:15:10,994 878850 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:15:10,995 878851 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:15:10,995 878851 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:15:10,995 878851 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:15:10,995 878851 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:15:10,996 878852 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:15:10,997 878853 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:15:11,007 878863 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:15:11,022 878878 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:15:11,022 878878 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:15:11,022 878878 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:15:11,022 878878 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:15:11,022 878878 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:15:11,023 878879 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:15:11,023 878879 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:15:11,024 878880 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:15:11,024 878880 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:15:11,024 878880 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:15:11,024 878880 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:15:11,025 878881 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:15:11,033 878889 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:15:11,042 878898 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00011_Z_001.bmp 2011-04-04 11:15:11,043 878899 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:15:11,048 878904 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:15:11,053 878909 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:15:11,054 878910 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:15:11,055 878911 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:15:11,056 878912 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:15:11,057 878913 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00011_Z_001.bmp 2011-04-04 11:15:11,058 878914 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:15:11,059 878915 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:15:11,060 878916 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:15:11,068 878924 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:15:11,069 878925 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:15:11,070 878926 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:15:11,071 878927 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:15:11,072 878928 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:15:11,074 878930 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:15:11,075 878931 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:15:11,075 878931 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:15:11,076 878932 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:15:11,077 878933 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@8ae431,Image:0 2011-04-04 11:15:11,078 878934 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@be5687,omero.model.OriginalFile:0 2011-04-04 11:15:11,078 878934 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@19482ea,Pixels:0 2011-04-04 11:15:11,079 878935 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@17e9fe8,Channel:0:0 2011-04-04 11:15:11,080 878936 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@c6fc84,omero.model.Channel:0:1 2011-04-04 11:15:11,081 878937 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@a9dcc2,omero.model.Channel:0:2 2011-04-04 11:15:11,082 878938 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@1ddfb6a,omero.model.FileAnnotation:0:0 2011-04-04 11:15:11,082 878938 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@86d2c7,omero.model.LogicalChannel:0:0 2011-04-04 11:15:11,083 878939 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@1845cce,omero.model.LogicalChannel:0:1 2011-04-04 11:15:11,084 878940 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@4b44f0,omero.model.LogicalChannel:0:2 2011-04-04 11:15:11,085 878941 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:15:11,086 878942 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:15:11,087 878943 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:15:11,088 878944 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:15:11,089 878945 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:15:11,089 878945 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:15:11,148 879004 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7851 2011-04-04 11:15:11,149 879005 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:15:11,161 879017 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:15:11,518 879374 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:15:11,745 879601 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:15:12,015 879871 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:15:12,016 879872 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:15:12,450 880306 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:15:12,451 880307 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:15:12,615 880471 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:15:12,616 880472 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:15:12,627 880483 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:15:23,789 891645 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:15:23,790 891646 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00012_Z_001.bmp 2011-04-04 11:15:23,883 891739 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00012_Z_001.bmp) 2011-04-04 11:15:23,883 891739 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:15:23,890 891746 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:15:23,893 891749 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:15:23,894 891750 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:15:23,897 891753 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:15:23,898 891754 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:15:23,898 891754 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:15:23,898 891754 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:15:23,898 891754 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:15:23,898 891754 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:15:23,899 891755 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:15:23,899 891755 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:15:23,899 891755 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:15:23,900 891756 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:15:23,900 891756 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:15:23,901 891757 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:15:23,902 891758 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:15:23,904 891760 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:15:23,907 891763 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:15:23,907 891763 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:15:23,907 891763 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:15:23,907 891763 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:15:23,907 891763 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:15:23,908 891764 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:15:23,908 891764 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:15:23,909 891765 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:15:23,909 891765 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:15:23,909 891765 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:15:23,909 891765 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:15:23,910 891766 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:15:23,911 891767 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:15:23,912 891768 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00012_Z_001.bmp 2011-04-04 11:15:23,913 891769 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:15:23,941 891797 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:15:23,941 891797 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:15:23,942 891798 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:15:23,942 891798 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:15:23,943 891799 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:15:23,943 891799 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00012_Z_001.bmp 2011-04-04 11:15:23,943 891799 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:15:23,944 891800 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:15:23,945 891801 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:15:23,956 891812 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:15:23,957 891813 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:15:23,957 891813 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:15:23,958 891814 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:15:23,959 891815 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:15:23,960 891816 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:15:23,961 891817 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:15:23,961 891817 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:15:23,961 891817 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:15:23,962 891818 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@203a16,Image:0 2011-04-04 11:15:23,962 891818 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@1e7e7e8,omero.model.OriginalFile:0 2011-04-04 11:15:23,964 891820 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@19f5783,Pixels:0 2011-04-04 11:15:23,964 891820 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@12f2b9e,Channel:0:0 2011-04-04 11:15:23,965 891821 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@1c84885,omero.model.Channel:0:1 2011-04-04 11:15:23,965 891821 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@cfefe9,omero.model.Channel:0:2 2011-04-04 11:15:23,966 891822 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@1092e88,omero.model.FileAnnotation:0:0 2011-04-04 11:15:24,001 891857 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@16d36a5,omero.model.LogicalChannel:0:0 2011-04-04 11:15:24,001 891857 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@119e82c,omero.model.LogicalChannel:0:1 2011-04-04 11:15:24,003 891859 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@8bb0f8,omero.model.LogicalChannel:0:2 2011-04-04 11:15:24,003 891859 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:15:24,004 891860 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:15:24,004 891860 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:15:24,005 891861 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:15:24,005 891861 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:15:24,006 891862 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:15:24,058 891914 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7852 2011-04-04 11:15:24,059 891915 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:15:24,069 891925 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:15:24,410 892266 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:15:24,650 892506 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:15:24,883 892739 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:15:24,884 892740 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:15:25,346 893202 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:15:25,346 893202 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:15:25,537 893393 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:15:25,538 893394 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:15:25,547 893403 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:15:36,736 904592 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:15:36,737 904593 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00013_Z_001.bmp 2011-04-04 11:15:36,813 904669 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00013_Z_001.bmp) 2011-04-04 11:15:36,814 904670 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:15:36,839 904695 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:15:36,842 904698 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:15:36,842 904698 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:15:36,844 904700 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:15:36,844 904700 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:15:36,844 904700 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:15:36,844 904700 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:15:36,844 904700 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:15:36,845 904701 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:15:36,845 904701 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:15:36,845 904701 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:15:36,845 904701 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:15:36,845 904701 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:15:36,845 904701 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:15:36,849 904705 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:15:36,850 904706 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:15:36,852 904708 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:15:36,857 904713 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:15:36,858 904714 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:15:36,858 904714 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:15:36,858 904714 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:15:36,858 904714 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:15:36,858 904714 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:15:36,858 904714 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:15:36,858 904714 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:15:36,859 904715 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:15:36,859 904715 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:15:36,859 904715 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:15:36,861 904717 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:15:36,866 904722 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:15:36,870 904726 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00013_Z_001.bmp 2011-04-04 11:15:36,876 904732 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:15:36,882 904738 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:15:36,882 904738 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:15:36,883 904739 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:15:36,883 904739 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:15:36,884 904740 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:15:36,884 904740 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00013_Z_001.bmp 2011-04-04 11:15:36,889 904745 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:15:36,889 904745 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:15:36,890 904746 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:15:36,890 904746 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:15:36,892 904748 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:15:36,892 904748 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:15:36,893 904749 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:15:36,893 904749 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:15:36,894 904750 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:15:36,894 904750 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:15:36,895 904751 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:15:36,895 904751 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:15:36,899 904755 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@1ab6087,Image:0 2011-04-04 11:15:36,901 904757 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@387bc2,omero.model.OriginalFile:0 2011-04-04 11:15:36,901 904757 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@b5cd8,Pixels:0 2011-04-04 11:15:36,902 904758 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@8197b2,Channel:0:0 2011-04-04 11:15:36,902 904758 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@7d53d8,omero.model.Channel:0:1 2011-04-04 11:15:36,903 904759 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@a8be43,omero.model.Channel:0:2 2011-04-04 11:15:36,903 904759 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@1aad75,omero.model.FileAnnotation:0:0 2011-04-04 11:15:36,904 904760 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@3b4f79,omero.model.LogicalChannel:0:0 2011-04-04 11:15:36,904 904760 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@472d86,omero.model.LogicalChannel:0:1 2011-04-04 11:15:36,905 904761 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@150fcc7,omero.model.LogicalChannel:0:2 2011-04-04 11:15:36,905 904761 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:15:36,906 904762 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:15:36,906 904762 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:15:36,907 904763 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:15:36,907 904763 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:15:36,908 904764 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:15:36,960 904816 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7853 2011-04-04 11:15:36,961 904817 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:15:36,978 904834 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:15:37,390 905246 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:15:37,659 905515 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:15:37,909 905765 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:15:37,910 905766 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:15:38,358 906214 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:15:38,359 906215 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:15:38,503 906359 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:15:38,503 906359 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:15:38,511 906367 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:15:44,589 912445 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:15:49,657 917513 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:15:49,659 917515 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00014_Z_001.bmp 2011-04-04 11:15:49,724 917580 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00014_Z_001.bmp) 2011-04-04 11:15:49,724 917580 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:15:49,765 917621 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:15:49,768 917624 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:15:49,769 917625 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:15:49,774 917630 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:15:49,774 917630 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:15:49,774 917630 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:15:49,774 917630 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:15:49,774 917630 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:15:49,775 917631 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:15:49,775 917631 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:15:49,776 917632 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:15:49,776 917632 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:15:49,776 917632 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:15:49,776 917632 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:15:49,781 917637 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:15:49,789 917645 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:15:49,798 917654 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:15:49,804 917660 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:15:49,804 917660 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:15:49,805 917661 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:15:49,805 917661 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:15:49,805 917661 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:15:49,805 917661 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:15:49,805 917661 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:15:49,806 917662 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:15:49,806 917662 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:15:49,806 917662 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:15:49,806 917662 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:15:49,807 917663 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:15:49,815 917671 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:15:49,816 917672 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00014_Z_001.bmp 2011-04-04 11:15:49,824 917680 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:15:49,827 917683 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:15:49,834 917690 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:15:49,835 917691 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:15:49,836 917692 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:15:49,837 917693 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:15:49,838 917694 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00014_Z_001.bmp 2011-04-04 11:15:49,839 917695 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:15:49,839 917695 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:15:49,840 917696 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:15:49,841 917697 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:15:49,842 917698 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:15:49,847 917703 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:15:49,847 917703 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:15:49,848 917704 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:15:49,849 917705 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:15:49,849 917705 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:15:49,849 917705 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:15:49,850 917706 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:15:49,851 917707 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@91a129,Image:0 2011-04-04 11:15:49,852 917708 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@2ab836,omero.model.OriginalFile:0 2011-04-04 11:15:49,852 917708 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@5f6ac6,Pixels:0 2011-04-04 11:15:49,854 917710 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@11a6bc7,Channel:0:0 2011-04-04 11:15:49,854 917710 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@f1770a,omero.model.Channel:0:1 2011-04-04 11:15:49,855 917711 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@73cd7,omero.model.Channel:0:2 2011-04-04 11:15:49,855 917711 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@e6d224,omero.model.FileAnnotation:0:0 2011-04-04 11:15:49,856 917712 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1da990d,omero.model.LogicalChannel:0:0 2011-04-04 11:15:49,856 917712 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@18f307,omero.model.LogicalChannel:0:1 2011-04-04 11:15:49,857 917713 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@334bfc,omero.model.LogicalChannel:0:2 2011-04-04 11:15:49,857 917713 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:15:49,858 917714 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:15:49,858 917714 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:15:49,858 917714 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:15:49,859 917715 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:15:49,860 917716 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:15:49,916 917772 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7854 2011-04-04 11:15:49,916 917772 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:15:49,928 917784 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:15:50,302 918158 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:15:50,534 918390 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:15:50,766 918622 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:15:50,766 918622 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:15:51,225 919081 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:15:51,225 919081 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:15:51,389 919245 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:15:51,390 919246 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:15:51,402 919258 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:16:02,799 930655 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:16:02,800 930656 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00015_Z_001.bmp 2011-04-04 11:16:02,920 930776 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00015_Z_001.bmp) 2011-04-04 11:16:02,920 930776 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:16:02,931 930787 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:16:02,934 930790 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:16:02,935 930791 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:16:02,938 930794 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:16:02,938 930794 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:16:02,938 930794 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:16:02,938 930794 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:16:02,938 930794 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:16:02,939 930795 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:16:02,939 930795 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:16:02,939 930795 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:16:02,940 930796 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:16:02,940 930796 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:16:02,940 930796 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:16:02,947 930803 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:16:02,955 930811 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:16:02,957 930813 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:16:02,959 930815 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:16:02,959 930815 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:16:02,959 930815 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:16:02,959 930815 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:16:02,959 930815 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:16:02,960 930816 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:16:02,960 930816 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:16:02,961 930817 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:16:02,961 930817 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:16:02,961 930817 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:16:02,961 930817 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:16:02,968 930824 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:16:02,975 930831 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:16:02,976 930832 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00015_Z_001.bmp 2011-04-04 11:16:02,985 930841 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:16:02,995 930851 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:16:02,997 930853 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:16:02,998 930854 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:16:02,999 930855 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:16:03,009 930865 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:16:03,010 930866 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00015_Z_001.bmp 2011-04-04 11:16:03,017 930873 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:16:03,018 930874 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:16:03,019 930875 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:16:03,020 930876 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:16:03,021 930877 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:16:03,021 930877 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:16:03,022 930878 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:16:03,023 930879 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:16:03,024 930880 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:16:03,025 930881 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:16:03,026 930882 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:16:03,026 930882 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:16:03,027 930883 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@1ea6c92,Image:0 2011-04-04 11:16:03,028 930884 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@1297ad9,omero.model.OriginalFile:0 2011-04-04 11:16:03,029 930885 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@964f92,Pixels:0 2011-04-04 11:16:03,029 930885 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@633589,Channel:0:0 2011-04-04 11:16:03,030 930886 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@414142,omero.model.Channel:0:1 2011-04-04 11:16:03,031 930887 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@14366f3,omero.model.Channel:0:2 2011-04-04 11:16:03,033 930889 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@1f78807,omero.model.FileAnnotation:0:0 2011-04-04 11:16:03,033 930889 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1383942,omero.model.LogicalChannel:0:0 2011-04-04 11:16:03,034 930890 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@1c16b30,omero.model.LogicalChannel:0:1 2011-04-04 11:16:03,035 930891 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@40979b,omero.model.LogicalChannel:0:2 2011-04-04 11:16:03,036 930892 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:16:03,037 930893 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:16:03,037 930893 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:16:03,038 930894 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:16:03,039 930895 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:16:03,039 930895 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:16:03,092 930948 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7855 2011-04-04 11:16:03,093 930949 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:16:03,108 930964 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:16:03,464 931320 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:16:03,701 931557 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:16:03,963 931819 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:16:03,964 931820 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:16:04,395 932251 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:16:04,396 932252 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:16:04,537 932393 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:16:04,538 932394 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:16:04,547 932403 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:16:15,717 943573 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:16:15,718 943574 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00016_Z_001.bmp 2011-04-04 11:16:15,787 943643 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00016_Z_001.bmp) 2011-04-04 11:16:15,787 943643 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:16:15,816 943672 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:16:15,819 943675 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:16:15,820 943676 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:16:15,821 943677 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:16:15,821 943677 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:16:15,821 943677 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:16:15,821 943677 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:16:15,822 943678 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:16:15,822 943678 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:16:15,822 943678 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:16:15,823 943679 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:16:15,823 943679 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:16:15,823 943679 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:16:15,823 943679 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:16:15,826 943682 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:16:15,827 943683 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:16:15,830 943686 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:16:15,832 943688 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:16:15,833 943689 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:16:15,833 943689 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:16:15,833 943689 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:16:15,833 943689 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:16:15,833 943689 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:16:15,833 943689 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:16:15,834 943690 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:16:15,834 943690 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:16:15,834 943690 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:16:15,834 943690 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:16:15,836 943692 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:16:15,840 943696 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:16:15,846 943702 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00016_Z_001.bmp 2011-04-04 11:16:15,850 943706 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:16:15,857 943713 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:16:15,857 943713 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:16:15,858 943714 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:16:15,858 943714 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:16:15,863 943719 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:16:15,863 943719 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00016_Z_001.bmp 2011-04-04 11:16:15,864 943720 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:16:15,864 943720 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:16:15,865 943721 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:16:15,865 943721 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:16:15,867 943723 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:16:15,867 943723 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:16:15,868 943724 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:16:15,868 943724 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:16:15,869 943725 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:16:15,869 943725 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:16:15,870 943726 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:16:15,872 943728 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:16:15,872 943728 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@11900d6,Image:0 2011-04-04 11:16:15,873 943729 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@17218c4,omero.model.OriginalFile:0 2011-04-04 11:16:15,874 943730 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@caa79c,Pixels:0 2011-04-04 11:16:15,874 943730 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@1a1ea46,Channel:0:0 2011-04-04 11:16:15,875 943731 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@10537e4,omero.model.Channel:0:1 2011-04-04 11:16:15,875 943731 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@d32028,omero.model.Channel:0:2 2011-04-04 11:16:15,876 943732 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@44916c,omero.model.FileAnnotation:0:0 2011-04-04 11:16:15,876 943732 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1135607,omero.model.LogicalChannel:0:0 2011-04-04 11:16:15,877 943733 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@1e4f266,omero.model.LogicalChannel:0:1 2011-04-04 11:16:15,877 943733 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@c0bc3a,omero.model.LogicalChannel:0:2 2011-04-04 11:16:15,878 943734 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:16:15,878 943734 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:16:15,878 943734 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:16:15,879 943735 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:16:15,879 943735 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:16:15,880 943736 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:16:15,930 943786 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7856 2011-04-04 11:16:15,931 943787 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:16:15,942 943798 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:16:16,302 944158 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:16:16,555 944411 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:16:16,784 944640 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:16:16,785 944641 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:16:17,217 945073 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:16:17,217 945073 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:16:17,371 945227 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:16:17,378 945234 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:16:17,389 945245 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:16:28,542 956398 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:16:28,543 956399 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00017_Z_001.bmp 2011-04-04 11:16:28,654 956510 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00017_Z_001.bmp) 2011-04-04 11:16:28,654 956510 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:16:28,662 956518 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:16:28,663 956519 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:16:28,664 956520 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:16:28,665 956521 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:16:28,665 956521 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:16:28,665 956521 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:16:28,665 956521 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:16:28,665 956521 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:16:28,666 956522 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:16:28,666 956522 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:16:28,666 956522 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:16:28,666 956522 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:16:28,666 956522 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:16:28,666 956522 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:16:28,670 956526 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:16:28,675 956531 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:16:28,680 956536 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:16:28,684 956540 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:16:28,684 956540 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:16:28,684 956540 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:16:28,684 956540 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:16:28,684 956540 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:16:28,685 956541 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:16:28,685 956541 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:16:28,685 956541 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:16:28,685 956541 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:16:28,685 956541 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:16:28,685 956541 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:16:28,688 956544 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:16:28,693 956549 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:16:28,694 956550 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00017_Z_001.bmp 2011-04-04 11:16:28,695 956551 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:16:28,697 956553 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:16:28,701 956557 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:16:28,702 956558 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:16:28,702 956558 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:16:28,703 956559 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:16:28,703 956559 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00017_Z_001.bmp 2011-04-04 11:16:28,704 956560 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:16:28,704 956560 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:16:28,705 956561 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:16:28,705 956561 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:16:28,706 956562 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:16:28,710 956566 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:16:28,711 956567 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:16:28,711 956567 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:16:28,712 956568 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:16:28,713 956569 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:16:28,713 956569 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:16:28,713 956569 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:16:28,714 956570 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@181db77,Image:0 2011-04-04 11:16:28,714 956570 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@a55242,omero.model.OriginalFile:0 2011-04-04 11:16:28,715 956571 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@16b8ebc,Pixels:0 2011-04-04 11:16:28,716 956572 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@17547a3,Channel:0:0 2011-04-04 11:16:28,716 956572 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@7e0f6,omero.model.Channel:0:1 2011-04-04 11:16:28,717 956573 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@218741,omero.model.Channel:0:2 2011-04-04 11:16:28,717 956573 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@1fa2e2e,omero.model.FileAnnotation:0:0 2011-04-04 11:16:28,718 956574 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1a3e311,omero.model.LogicalChannel:0:0 2011-04-04 11:16:28,719 956575 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@141d281,omero.model.LogicalChannel:0:1 2011-04-04 11:16:28,719 956575 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@17fc253,omero.model.LogicalChannel:0:2 2011-04-04 11:16:28,720 956576 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:16:28,720 956576 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:16:28,721 956577 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:16:28,721 956577 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:16:28,722 956578 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:16:28,722 956578 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:16:28,772 956628 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7857 2011-04-04 11:16:28,773 956629 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:16:28,785 956641 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:16:29,136 956992 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:16:29,393 957249 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:16:29,635 957491 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:16:29,635 957491 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:16:30,087 957943 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:16:30,102 957958 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:16:30,261 958117 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:16:30,262 958118 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:16:30,273 958129 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:16:41,431 969287 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:16:41,432 969288 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00018_Z_001.bmp 2011-04-04 11:16:41,511 969367 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00018_Z_001.bmp) 2011-04-04 11:16:41,511 969367 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:16:41,518 969374 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:16:41,520 969376 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:16:41,520 969376 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:16:41,522 969378 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:16:41,522 969378 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:16:41,522 969378 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:16:41,522 969378 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:16:41,522 969378 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:16:41,523 969379 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:16:41,523 969379 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:16:41,523 969379 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:16:41,523 969379 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:16:41,523 969379 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:16:41,524 969380 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:16:41,526 969382 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:16:41,530 969386 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:16:41,536 969392 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:16:41,541 969397 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:16:41,541 969397 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:16:41,541 969397 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:16:41,541 969397 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:16:41,541 969397 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:16:41,541 969397 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:16:41,541 969397 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:16:41,542 969398 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:16:41,542 969398 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:16:41,542 969398 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:16:41,542 969398 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:16:41,544 969400 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:16:41,549 969405 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:16:41,550 969406 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00018_Z_001.bmp 2011-04-04 11:16:41,551 969407 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:16:41,554 969410 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:16:41,557 969413 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:16:41,558 969414 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:16:41,559 969415 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:16:41,559 969415 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:16:41,559 969415 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00018_Z_001.bmp 2011-04-04 11:16:41,560 969416 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:16:41,560 969416 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:16:41,561 969417 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:16:41,561 969417 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:16:41,562 969418 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:16:41,563 969419 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:16:41,563 969419 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:16:41,564 969420 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:16:41,565 969421 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:16:41,565 969421 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:16:41,567 969423 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:16:41,567 969423 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:16:41,568 969424 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@1dfb840,Image:0 2011-04-04 11:16:41,568 969424 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@14ecfe8,omero.model.OriginalFile:0 2011-04-04 11:16:41,569 969425 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@fc02c8,Pixels:0 2011-04-04 11:16:41,569 969425 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@13d4497,Channel:0:0 2011-04-04 11:16:41,570 969426 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@149fa1e,omero.model.Channel:0:1 2011-04-04 11:16:41,570 969426 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@de32e1,omero.model.Channel:0:2 2011-04-04 11:16:41,571 969427 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@892cc5,omero.model.FileAnnotation:0:0 2011-04-04 11:16:41,572 969428 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@ebd7c4,omero.model.LogicalChannel:0:0 2011-04-04 11:16:41,572 969428 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@1151bf2,omero.model.LogicalChannel:0:1 2011-04-04 11:16:41,573 969429 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@17c048c,omero.model.LogicalChannel:0:2 2011-04-04 11:16:41,573 969429 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:16:41,574 969430 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:16:41,574 969430 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:16:41,575 969431 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:16:41,575 969431 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:16:41,576 969432 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:16:41,625 969481 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7858 2011-04-04 11:16:41,625 969481 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:16:41,632 969488 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:16:42,044 969900 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:16:42,285 970141 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:16:42,522 970378 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:16:42,523 970379 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:16:42,958 970814 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:16:42,959 970815 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:16:43,126 970982 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:16:43,127 970983 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:16:43,135 970991 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:16:44,587 972443 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:16:54,347 982203 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:16:54,348 982204 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00019_Z_001.bmp 2011-04-04 11:16:54,510 982366 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00019_Z_001.bmp) 2011-04-04 11:16:54,510 982366 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:16:54,517 982373 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:16:54,519 982375 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:16:54,520 982376 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:16:54,521 982377 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:16:54,521 982377 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:16:54,521 982377 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:16:54,521 982377 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:16:54,521 982377 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:16:54,522 982378 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:16:54,522 982378 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:16:54,522 982378 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:16:54,522 982378 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:16:54,522 982378 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:16:54,522 982378 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:16:54,526 982382 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:16:54,527 982383 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:16:54,529 982385 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:16:54,535 982391 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:16:54,535 982391 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:16:54,535 982391 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:16:54,535 982391 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:16:54,535 982391 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:16:54,536 982392 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:16:54,536 982392 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:16:54,536 982392 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:16:54,536 982392 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:16:54,536 982392 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:16:54,536 982392 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:16:54,540 982396 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:16:54,546 982402 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:16:54,546 982402 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00019_Z_001.bmp 2011-04-04 11:16:54,552 982408 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:16:54,563 982419 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:16:54,564 982420 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:16:54,564 982420 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:16:54,565 982421 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:16:54,565 982421 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:16:54,566 982422 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00019_Z_001.bmp 2011-04-04 11:16:54,573 982429 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:16:54,573 982429 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:16:54,574 982430 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:16:54,574 982430 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:16:54,575 982431 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:16:54,576 982432 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:16:54,577 982433 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:16:54,578 982434 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:16:54,578 982434 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:16:54,579 982435 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:16:54,579 982435 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:16:54,580 982436 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:16:54,581 982437 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@1f6670f,Image:0 2011-04-04 11:16:54,581 982437 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@179d425,omero.model.OriginalFile:0 2011-04-04 11:16:54,582 982438 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@dffeb5,Pixels:0 2011-04-04 11:16:54,583 982439 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@1a053d5,Channel:0:0 2011-04-04 11:16:54,583 982439 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@1aa0b72,omero.model.Channel:0:1 2011-04-04 11:16:54,584 982440 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@1074641,omero.model.Channel:0:2 2011-04-04 11:16:54,585 982441 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@13ed0e,omero.model.FileAnnotation:0:0 2011-04-04 11:16:54,585 982441 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1562036,omero.model.LogicalChannel:0:0 2011-04-04 11:16:54,586 982442 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@52a22d,omero.model.LogicalChannel:0:1 2011-04-04 11:16:54,586 982442 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@108c4e1,omero.model.LogicalChannel:0:2 2011-04-04 11:16:54,587 982443 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:16:54,588 982444 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:16:54,589 982445 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:16:54,589 982445 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:16:54,590 982446 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:16:54,591 982447 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:16:54,637 982493 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7859 2011-04-04 11:16:54,647 982503 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:16:54,655 982511 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:16:55,185 983041 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:16:55,416 983272 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:16:55,653 983509 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:16:55,654 983510 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:16:56,098 983954 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:16:56,099 983955 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:16:56,261 984117 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:16:56,262 984118 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:16:56,266 984122 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:17:07,416 995272 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:17:07,417 995273 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00020_Z_001.bmp 2011-04-04 11:17:07,540 995396 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00020_Z_001.bmp) 2011-04-04 11:17:07,540 995396 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:17:07,548 995404 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:17:07,550 995406 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:17:07,551 995407 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:17:07,553 995409 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:17:07,553 995409 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:17:07,553 995409 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:17:07,553 995409 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:17:07,553 995409 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:17:07,554 995410 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:17:07,554 995410 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:17:07,554 995410 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:17:07,554 995410 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:17:07,554 995410 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:17:07,554 995410 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:17:07,555 995411 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:17:07,557 995413 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:17:07,565 995421 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:17:07,571 995427 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:17:07,572 995428 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:17:07,572 995428 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:17:07,572 995428 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:17:07,572 995428 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:17:07,572 995428 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:17:07,572 995428 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:17:07,573 995429 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:17:07,573 995429 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:17:07,573 995429 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:17:07,573 995429 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:17:07,578 995434 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:17:07,585 995441 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:17:07,592 995448 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00020_Z_001.bmp 2011-04-04 11:17:07,598 995454 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:17:07,605 995461 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:17:07,606 995462 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:17:07,606 995462 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:17:07,607 995463 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:17:07,607 995463 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:17:07,611 995467 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00020_Z_001.bmp 2011-04-04 11:17:07,612 995468 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:17:07,612 995468 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:17:07,616 995472 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:17:07,616 995472 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:17:07,617 995473 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:17:07,617 995473 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:17:07,618 995474 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:17:07,619 995475 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:17:07,619 995475 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:17:07,620 995476 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:17:07,620 995476 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:17:07,621 995477 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:17:07,621 995477 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@1c48403,Image:0 2011-04-04 11:17:07,622 995478 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@e9d39c,omero.model.OriginalFile:0 2011-04-04 11:17:07,622 995478 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@472c8d,Pixels:0 2011-04-04 11:17:07,622 995478 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@d6e0df,Channel:0:0 2011-04-04 11:17:07,623 995479 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@dcdc8b,omero.model.Channel:0:1 2011-04-04 11:17:07,623 995479 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@9d478b,omero.model.Channel:0:2 2011-04-04 11:17:07,624 995480 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@998537,omero.model.FileAnnotation:0:0 2011-04-04 11:17:07,624 995480 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1d0740e,omero.model.LogicalChannel:0:0 2011-04-04 11:17:07,625 995481 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@143294a,omero.model.LogicalChannel:0:1 2011-04-04 11:17:07,625 995481 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@8cf401,omero.model.LogicalChannel:0:2 2011-04-04 11:17:07,626 995482 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:17:07,626 995482 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:17:07,627 995483 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:17:07,627 995483 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:17:07,628 995484 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:17:07,628 995484 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:17:07,678 995534 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7860 2011-04-04 11:17:07,679 995535 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:17:07,689 995545 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:17:08,063 995919 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:17:08,296 996152 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:17:08,525 996381 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:17:08,526 996382 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:17:08,960 996816 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:17:08,960 996816 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:17:09,133 996989 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:17:09,134 996990 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:17:09,148 997004 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:17:20,305 1008161 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:17:20,306 1008162 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00021_Z_001.bmp 2011-04-04 11:17:20,405 1008261 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00021_Z_001.bmp) 2011-04-04 11:17:20,405 1008261 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:17:20,412 1008268 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:17:20,414 1008270 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:17:20,414 1008270 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:17:20,417 1008273 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:17:20,417 1008273 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:17:20,417 1008273 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:17:20,417 1008273 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:17:20,417 1008273 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:17:20,417 1008273 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:17:20,417 1008273 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:17:20,417 1008273 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:17:20,418 1008274 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:17:20,418 1008274 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:17:20,418 1008274 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:17:20,420 1008276 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:17:20,421 1008277 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:17:20,422 1008278 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:17:20,424 1008280 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:17:20,424 1008280 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:17:20,424 1008280 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:17:20,424 1008280 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:17:20,424 1008280 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:17:20,424 1008280 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:17:20,425 1008281 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:17:20,425 1008281 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:17:20,425 1008281 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:17:20,425 1008281 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:17:20,425 1008281 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:17:20,429 1008285 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:17:20,433 1008289 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:17:20,438 1008294 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00021_Z_001.bmp 2011-04-04 11:17:20,439 1008295 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:17:20,442 1008298 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:17:20,444 1008300 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:17:20,448 1008304 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:17:20,449 1008305 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:17:20,450 1008306 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:17:20,450 1008306 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00021_Z_001.bmp 2011-04-04 11:17:20,451 1008307 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:17:20,451 1008307 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:17:20,452 1008308 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:17:20,452 1008308 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:17:20,453 1008309 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:17:20,453 1008309 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:17:20,454 1008310 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:17:20,454 1008310 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:17:20,459 1008315 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:17:20,459 1008315 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:17:20,460 1008316 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:17:20,460 1008316 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:17:20,461 1008317 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@17f4790,Image:0 2011-04-04 11:17:20,461 1008317 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@9b027d,omero.model.OriginalFile:0 2011-04-04 11:17:20,462 1008318 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@12a07c9,Pixels:0 2011-04-04 11:17:20,462 1008318 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@667da1,Channel:0:0 2011-04-04 11:17:20,463 1008319 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@6d41c0,omero.model.Channel:0:1 2011-04-04 11:17:20,463 1008319 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@191b73f,omero.model.Channel:0:2 2011-04-04 11:17:20,464 1008320 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@4c79a1,omero.model.FileAnnotation:0:0 2011-04-04 11:17:20,464 1008320 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@b2ee9a,omero.model.LogicalChannel:0:0 2011-04-04 11:17:20,465 1008321 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@1e8bb4c,omero.model.LogicalChannel:0:1 2011-04-04 11:17:20,465 1008321 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@ad2738,omero.model.LogicalChannel:0:2 2011-04-04 11:17:20,465 1008321 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:17:20,470 1008326 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:17:20,471 1008327 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:17:20,471 1008327 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:17:20,472 1008328 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:17:20,472 1008328 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:17:20,532 1008388 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7861 2011-04-04 11:17:20,533 1008389 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:17:20,544 1008400 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:17:20,915 1008771 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:17:21,141 1008997 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:17:21,381 1009237 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:17:21,382 1009238 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:17:21,848 1009704 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:17:21,849 1009705 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:17:22,031 1009887 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:17:22,033 1009889 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:17:22,043 1009899 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:17:33,242 1021098 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:17:33,243 1021099 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00022_Z_001.bmp 2011-04-04 11:17:33,361 1021217 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00022_Z_001.bmp) 2011-04-04 11:17:33,361 1021217 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:17:33,369 1021225 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:17:33,371 1021227 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:17:33,372 1021228 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:17:33,373 1021229 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:17:33,373 1021229 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:17:33,373 1021229 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:17:33,374 1021230 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:17:33,374 1021230 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:17:33,374 1021230 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:17:33,374 1021230 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:17:33,375 1021231 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:17:33,375 1021231 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:17:33,375 1021231 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:17:33,375 1021231 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:17:33,377 1021233 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:17:33,382 1021238 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:17:33,388 1021244 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:17:33,390 1021246 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:17:33,390 1021246 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:17:33,391 1021247 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:17:33,391 1021247 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:17:33,391 1021247 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:17:33,391 1021247 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:17:33,391 1021247 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:17:33,392 1021248 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:17:33,392 1021248 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:17:33,392 1021248 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:17:33,392 1021248 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:17:33,395 1021251 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:17:33,398 1021254 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:17:33,402 1021258 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00022_Z_001.bmp 2011-04-04 11:17:33,407 1021263 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:17:33,412 1021268 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:17:33,412 1021268 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:17:33,413 1021269 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:17:33,413 1021269 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:17:33,414 1021270 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:17:33,414 1021270 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00022_Z_001.bmp 2011-04-04 11:17:33,419 1021275 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:17:33,419 1021275 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:17:33,420 1021276 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:17:33,420 1021276 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:17:33,421 1021277 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:17:33,421 1021277 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:17:33,422 1021278 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:17:33,422 1021278 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:17:33,423 1021279 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:17:33,423 1021279 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:17:33,424 1021280 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:17:33,424 1021280 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:17:33,425 1021281 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@1d7999e,Image:0 2011-04-04 11:17:33,425 1021281 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@e04981,omero.model.OriginalFile:0 2011-04-04 11:17:33,426 1021282 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@12aa3fb,Pixels:0 2011-04-04 11:17:33,426 1021282 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@1a23f67,Channel:0:0 2011-04-04 11:17:33,427 1021283 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@15dd936,omero.model.Channel:0:1 2011-04-04 11:17:33,427 1021283 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@15a3dac,omero.model.Channel:0:2 2011-04-04 11:17:33,428 1021284 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@6876f6,omero.model.FileAnnotation:0:0 2011-04-04 11:17:33,429 1021285 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@19e2380,omero.model.LogicalChannel:0:0 2011-04-04 11:17:33,429 1021285 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@dcbf25,omero.model.LogicalChannel:0:1 2011-04-04 11:17:33,430 1021286 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@1ca6fe4,omero.model.LogicalChannel:0:2 2011-04-04 11:17:33,431 1021287 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:17:33,431 1021287 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:17:33,432 1021288 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:17:33,432 1021288 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:17:33,433 1021289 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:17:33,433 1021289 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:17:33,487 1021343 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7862 2011-04-04 11:17:33,487 1021343 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:17:33,497 1021353 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:17:33,830 1021686 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:17:34,074 1021930 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:17:34,331 1022187 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:17:34,332 1022188 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:17:34,779 1022635 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:17:34,780 1022636 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:17:34,950 1022806 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:17:34,952 1022808 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:17:34,955 1022811 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:17:44,587 1032443 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:17:46,218 1034074 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:17:46,220 1034076 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00023_Z_001.bmp 2011-04-04 11:17:46,793 1034649 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00023_Z_001.bmp) 2011-04-04 11:17:46,793 1034649 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:17:46,801 1034657 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:17:46,803 1034659 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:17:46,803 1034659 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:17:46,805 1034661 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:17:46,805 1034661 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:17:46,805 1034661 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:17:46,805 1034661 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:17:46,805 1034661 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:17:46,806 1034662 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:17:46,806 1034662 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:17:46,806 1034662 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:17:46,806 1034662 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:17:46,806 1034662 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:17:46,806 1034662 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:17:46,810 1034666 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:17:46,815 1034671 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:17:46,822 1034678 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:17:46,827 1034683 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:17:46,827 1034683 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:17:46,827 1034683 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:17:46,827 1034683 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:17:46,827 1034683 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:17:46,828 1034684 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:17:46,828 1034684 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:17:46,828 1034684 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:17:46,828 1034684 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:17:46,828 1034684 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:17:46,828 1034684 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:17:46,832 1034688 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:17:46,832 1034688 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:17:46,833 1034689 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00023_Z_001.bmp 2011-04-04 11:17:46,835 1034691 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:17:46,840 1034696 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:17:46,844 1034700 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:17:46,845 1034701 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:17:46,850 1034706 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:17:46,851 1034707 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:17:46,852 1034708 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00023_Z_001.bmp 2011-04-04 11:17:46,852 1034708 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:17:46,853 1034709 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:17:46,853 1034709 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:17:46,854 1034710 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:17:46,855 1034711 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:17:46,855 1034711 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:17:46,856 1034712 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:17:46,862 1034718 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:17:46,863 1034719 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:17:46,864 1034720 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:17:46,864 1034720 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:17:46,865 1034721 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:17:46,866 1034722 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@197436b,Image:0 2011-04-04 11:17:46,866 1034722 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@45b098,omero.model.OriginalFile:0 2011-04-04 11:17:46,867 1034723 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@1f9cc39,Pixels:0 2011-04-04 11:17:46,868 1034724 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@1a6a354,Channel:0:0 2011-04-04 11:17:46,869 1034725 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@134cd7b,omero.model.Channel:0:1 2011-04-04 11:17:46,869 1034725 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@1a97149,omero.model.Channel:0:2 2011-04-04 11:17:46,870 1034726 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@bce28a,omero.model.FileAnnotation:0:0 2011-04-04 11:17:46,871 1034727 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1124805,omero.model.LogicalChannel:0:0 2011-04-04 11:17:46,871 1034727 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@11c5bb0,omero.model.LogicalChannel:0:1 2011-04-04 11:17:46,872 1034728 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@151ad98,omero.model.LogicalChannel:0:2 2011-04-04 11:17:46,872 1034728 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:17:46,873 1034729 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:17:46,874 1034730 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:17:46,874 1034730 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:17:46,875 1034731 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:17:46,876 1034732 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:17:46,930 1034786 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7863 2011-04-04 11:17:46,931 1034787 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:17:46,938 1034794 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:17:47,283 1035139 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:17:47,543 1035399 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:17:47,774 1035630 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:17:47,775 1035631 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:17:48,222 1036078 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:17:48,223 1036079 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:17:48,390 1036246 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:17:48,390 1036246 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:17:48,399 1036255 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:17:59,752 1047608 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:17:59,753 1047609 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00024_Z_001.bmp 2011-04-04 11:17:59,816 1047672 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00024_Z_001.bmp) 2011-04-04 11:17:59,816 1047672 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:17:59,856 1047712 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:17:59,860 1047716 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:17:59,861 1047717 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:17:59,864 1047720 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:17:59,864 1047720 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:17:59,864 1047720 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:17:59,864 1047720 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:17:59,864 1047720 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:17:59,865 1047721 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:17:59,865 1047721 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:17:59,865 1047721 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:17:59,865 1047721 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:17:59,865 1047721 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:17:59,866 1047722 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:17:59,870 1047726 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:17:59,884 1047740 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:17:59,887 1047743 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:17:59,889 1047745 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:17:59,889 1047745 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:17:59,889 1047745 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:17:59,889 1047745 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:17:59,889 1047745 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:17:59,890 1047746 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:17:59,890 1047746 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:17:59,891 1047747 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:17:59,891 1047747 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:17:59,891 1047747 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:17:59,891 1047747 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:17:59,892 1047748 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:17:59,897 1047753 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:17:59,901 1047757 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00024_Z_001.bmp 2011-04-04 11:17:59,906 1047762 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:17:59,912 1047768 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:17:59,912 1047768 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:17:59,913 1047769 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:17:59,913 1047769 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:17:59,913 1047769 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:17:59,914 1047770 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00024_Z_001.bmp 2011-04-04 11:17:59,919 1047775 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:17:59,920 1047776 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:17:59,920 1047776 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:17:59,920 1047776 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:17:59,921 1047777 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:17:59,921 1047777 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:17:59,922 1047778 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:17:59,922 1047778 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:17:59,923 1047779 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:17:59,924 1047780 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:17:59,925 1047781 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:17:59,925 1047781 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:17:59,925 1047781 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@14b6ec8,Image:0 2011-04-04 11:17:59,926 1047782 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@4ed448,omero.model.OriginalFile:0 2011-04-04 11:17:59,926 1047782 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@d8dc5a,Pixels:0 2011-04-04 11:17:59,927 1047783 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@1f24010,Channel:0:0 2011-04-04 11:17:59,928 1047784 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@9efcf3,omero.model.Channel:0:1 2011-04-04 11:17:59,928 1047784 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@e08edd,omero.model.Channel:0:2 2011-04-04 11:17:59,929 1047785 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@4e29a2,omero.model.FileAnnotation:0:0 2011-04-04 11:17:59,929 1047785 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1e4e47f,omero.model.LogicalChannel:0:0 2011-04-04 11:17:59,930 1047786 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@13c8bb1,omero.model.LogicalChannel:0:1 2011-04-04 11:17:59,930 1047786 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@b70e32,omero.model.LogicalChannel:0:2 2011-04-04 11:17:59,931 1047787 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:17:59,932 1047788 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:17:59,932 1047788 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:17:59,933 1047789 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:17:59,933 1047789 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:17:59,934 1047790 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:17:59,986 1047842 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7864 2011-04-04 11:17:59,987 1047843 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:17:59,994 1047850 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:18:00,334 1048190 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:18:00,561 1048417 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:18:00,831 1048687 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:18:00,831 1048687 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:18:01,281 1049137 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:18:01,282 1049138 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:18:01,438 1049294 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:18:01,439 1049295 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:18:01,449 1049305 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:18:12,676 1060532 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:18:12,677 1060533 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00025_Z_001.bmp 2011-04-04 11:18:12,684 1060540 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.BMPReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_bmp\081103MFLPC_CZ1__A__10_T_001_ch_02_image_00025_Z_001.bmp) 2011-04-04 11:18:12,685 1060541 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:18:12,695 1060551 [2-thread-1] INFO loci.formats.FormatHandler - Reading bitmap header 2011-04-04 11:18:12,698 1060554 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:18:12,698 1060554 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:18:12,704 1060560 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:18:12,704 1060560 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:18:12,704 1060560 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:18:12,704 1060560 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:18:12,704 1060560 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:18:12,705 1060561 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:18:12,705 1060561 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:18:12,706 1060562 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:18:12,706 1060562 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:18:12,706 1060562 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:18:12,706 1060562 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:18:12,707 1060563 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:18:12,708 1060564 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:18:12,711 1060567 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: BMP 2011-04-04 11:18:12,713 1060569 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:18:12,713 1060569 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:18:12,713 1060569 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:18:12,713 1060569 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:18:12,713 1060569 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:18:12,716 1060572 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:18:12,716 1060572 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:18:12,717 1060573 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:18:12,717 1060573 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:18:12,717 1060573 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:18:12,717 1060573 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:18:12,719 1060575 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCTZ 2011-04-04 11:18:12,720 1060576 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:18:12,721 1060577 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00025_Z_001.bmp 2011-04-04 11:18:12,800 1060656 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:18:12,803 1060659 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:18:12,808 1060664 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:18:12,808 1060664 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:18:12,809 1060665 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:18:12,809 1060665 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:18:12,810 1060666 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 081103MFLPC_CZ1__A__10_T_001_ch_02_image_00025_Z_001.bmp 2011-04-04 11:18:12,810 1060666 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:18:12,811 1060667 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Images are of the graphics domain. 2011-04-04 11:18:12,812 1060668 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: true 2011-04-04 11:18:12,812 1060668 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:18:12,813 1060669 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:18:12,813 1060669 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:18:12,814 1060670 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:18:12,814 1060670 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Setting color channel to RGB. 2011-04-04 11:18:12,819 1060675 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:18:12,820 1060676 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:18:12,820 1060676 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:18:12,821 1060677 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:18:12,821 1060677 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@187d48,Image:0 2011-04-04 11:18:12,822 1060678 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@16c50af,omero.model.OriginalFile:0 2011-04-04 11:18:12,822 1060678 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@e0e49f,Pixels:0 2011-04-04 11:18:12,823 1060679 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@1ccfa13,Channel:0:0 2011-04-04 11:18:12,823 1060679 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@1a32ecd,omero.model.Channel:0:1 2011-04-04 11:18:12,824 1060680 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@1b3768b,omero.model.Channel:0:2 2011-04-04 11:18:12,824 1060680 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@bfa9d6,omero.model.FileAnnotation:0:0 2011-04-04 11:18:12,824 1060680 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1521871,omero.model.LogicalChannel:0:0 2011-04-04 11:18:12,825 1060681 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@1fa93a1,omero.model.LogicalChannel:0:1 2011-04-04 11:18:12,825 1060681 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@13c470b,omero.model.LogicalChannel:0:2 2011-04-04 11:18:12,826 1060682 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:18:12,826 1060682 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:18:12,827 1060683 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:752 2011-04-04 11:18:12,827 1060683 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:18:12,828 1060684 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:18:12,828 1060684 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:18:12,879 1060735 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7865 2011-04-04 11:18:12,879 1060735 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:18:12,886 1060742 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:18:13,226 1061082 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:18:13,452 1061308 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:18:13,678 1061534 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:18:13,679 1061535 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:18:14,122 1061978 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:18:14,123 1061979 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:18:14,298 1062154 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:18:14,300 1062156 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:18:14,303 1062159 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:18:44,586 1092442 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:19:44,585 1152441 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:20:44,583 1212439 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:20:57,798 1225654 [entQueue-0] INFO me.formats.importer.gui.FileQueueHandler - Scheduling candidate calculations(2)=[C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\100_A11_1_blue.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\100_A11_1_green.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\100_A11_1_red.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\100_A11_1_yellow.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\100_A2_1_blue.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\100_A2_1_green.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\100_A2_1_red.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\100_A2_1_yellow.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\103_A12_1_blue.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\103_A12_1_green.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\103_A12_1_red.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\103_A12_1_yellow.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\116_D2_1_blue.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\116_D2_1_green.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\116_D2_1_red.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\116_D2_1_yellow.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\21_H8_1_blue.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\21_H8_1_green.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\21_H8_1_red.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\21_H8_1_yellow.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\5_E4_1_blue.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\5_E4_1_green.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\5_E4_1_red.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\5_E4_1_yellow.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\5_E4_2_blue.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\5_E4_2_green.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\5_E4_2_red.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\5_E4_2_yellow.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\78_G1_2_blue.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\78_G1_2_green.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\78_G1_2_red.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\78_G1_2_yellow.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\80_E6_2_blue.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\80_E6_2_green.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\80_E6_2_red.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\80_E6_2_yellow.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\8_G5_2_blue.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\8_G5_2_green.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\8_G5_2_red.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\8_G5_2_yellow.tif] 2011-04-04 11:20:57,806 1225662 [entQueue-0] INFO me.formats.importer.gui.FileQueueHandler - Handling import containers(2)=[C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\100_A11_1_blue.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\100_A11_1_green.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\100_A11_1_red.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\100_A11_1_yellow.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\100_A2_1_blue.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\100_A2_1_green.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\100_A2_1_red.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\100_A2_1_yellow.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\103_A12_1_blue.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\103_A12_1_green.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\103_A12_1_red.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\103_A12_1_yellow.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\116_D2_1_blue.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\116_D2_1_green.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\116_D2_1_red.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\116_D2_1_yellow.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\21_H8_1_blue.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\21_H8_1_green.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\21_H8_1_red.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\21_H8_1_yellow.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\5_E4_1_blue.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\5_E4_1_green.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\5_E4_1_red.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\5_E4_1_yellow.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\5_E4_2_blue.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\5_E4_2_green.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\5_E4_2_red.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\5_E4_2_yellow.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\78_G1_2_blue.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\78_G1_2_green.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\78_G1_2_red.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\78_G1_2_yellow.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\80_E6_2_blue.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\80_E6_2_green.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\80_E6_2_red.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\80_E6_2_yellow.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\8_G5_2_blue.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\8_G5_2_green.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\8_G5_2_red.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\8_G5_2_yellow.tif] 2011-04-04 11:21:11,947 1239803 [2-thread-1] INFO ome.formats.importer.gui.ImportHandler - Background: Importing images 2011-04-04 11:21:11,958 1239814 [2-thread-1] DEBUG ome.formats.importer.gui.ImportHandler - New importKey for history db is: 41 2011-04-04 11:21:12,321 1240177 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:21:12,321 1240177 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 100_A11_1_blue.tif 2011-04-04 11:21:12,627 1240483 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:21:12,628 1240484 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:21:12,628 1240484 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:21:12,628 1240484 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:21:12,628 1240484 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:21:12,628 1240484 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:21:12,629 1240485 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:21:12,629 1240485 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:21:12,629 1240485 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:21:12,629 1240485 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:21:12,676 1240532 [2-thread-1] DEBUG loci.common.xml.XMLTools - Content is not allowed in prolog. 2011-04-04 11:21:12,687 1240543 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffDelegateReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\100_A11_1_blue.tif) 2011-04-04 11:21:12,687 1240543 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:21:12,692 1240548 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\100_A11_1_blue.tif) 2011-04-04 11:21:12,692 1240548 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:21:12,697 1240553 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:21:12,698 1240554 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:21:12,709 1240565 [2-thread-1] INFO loci.formats.FormatHandler - Checking comment style 2011-04-04 11:21:12,724 1240580 [2-thread-1] INFO loci.formats.FormatHandler - Populating OME metadata 2011-04-04 11:21:12,724 1240580 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:21:12,726 1240582 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:21:12,726 1240582 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:21:12,726 1240582 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:21:12,726 1240582 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:21:12,726 1240582 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:21:12,726 1240582 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:21:12,726 1240582 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:21:12,727 1240583 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:21:12,727 1240583 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:21:12,727 1240583 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:21:12,727 1240583 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:21:12,728 1240584 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:21:12,731 1240587 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:21:12,735 1240591 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:21:12,738 1240594 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:21:12,742 1240598 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:21:12,745 1240601 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:21:12,745 1240601 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:21:12,745 1240601 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:21:12,745 1240601 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:21:12,745 1240601 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:21:12,746 1240602 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:21:12,746 1240602 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:21:12,746 1240602 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:21:12,746 1240602 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:21:12,746 1240602 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:21:12,746 1240602 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:21:12,752 1240608 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:21:12,752 1240608 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:21:12,760 1240616 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 100_A11_1_blue.tif 2011-04-04 11:21:12,764 1240620 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:21:12,770 1240626 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:21:12,770 1240626 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:21:12,771 1240627 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:21:12,775 1240631 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:21:12,775 1240631 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:21:12,776 1240632 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 100_A11_1_blue.tif 2011-04-04 11:21:12,776 1240632 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:21:12,777 1240633 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:21:12,777 1240633 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:21:12,778 1240634 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:21:12,779 1240635 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:21:12,779 1240635 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:21:12,780 1240636 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:21:12,780 1240636 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:21:12,781 1240637 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@1eacf71,Image:0 2011-04-04 11:21:12,781 1240637 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@49579a,omero.model.OriginalFile:0 2011-04-04 11:21:12,782 1240638 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@b6985b,Pixels:0 2011-04-04 11:21:12,782 1240638 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@ae0aae,Channel:0:0 2011-04-04 11:21:12,783 1240639 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@1f622fa,omero.model.Channel:0:1 2011-04-04 11:21:12,783 1240639 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@d36d73,omero.model.Channel:0:2 2011-04-04 11:21:12,784 1240640 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@ddf191,omero.model.FileAnnotation:0:0 2011-04-04 11:21:12,784 1240640 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@141ce14,omero.model.LogicalChannel:0:0 2011-04-04 11:21:12,785 1240641 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@920d5d,omero.model.LogicalChannel:0:1 2011-04-04 11:21:12,785 1240641 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@120e76d,omero.model.LogicalChannel:0:2 2011-04-04 11:21:12,786 1240642 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:21:12,786 1240642 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:21:12,787 1240643 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:751 2011-04-04 11:21:12,787 1240643 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:21:12,788 1240644 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:21:12,788 1240644 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:21:12,840 1240696 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7866 2011-04-04 11:21:12,841 1240697 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:21:12,851 1240707 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:21:13,442 1241298 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:21:13,930 1241786 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:21:14,402 1242258 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:21:14,403 1242259 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:21:14,860 1242716 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:21:14,861 1242717 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:21:15,057 1242913 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:21:15,058 1242914 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:21:15,068 1242924 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:21:27,039 1254895 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:21:27,040 1254896 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 100_A11_1_green.tif 2011-04-04 11:21:27,371 1255227 [2-thread-1] DEBUG loci.common.xml.XMLTools - Content is not allowed in prolog. 2011-04-04 11:21:27,382 1255238 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffDelegateReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\100_A11_1_green.tif) 2011-04-04 11:21:27,382 1255238 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:21:27,387 1255243 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\100_A11_1_green.tif) 2011-04-04 11:21:27,387 1255243 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:21:27,393 1255249 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:21:27,394 1255250 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:21:27,394 1255250 [2-thread-1] INFO loci.formats.FormatHandler - Checking comment style 2011-04-04 11:21:27,411 1255267 [2-thread-1] INFO loci.formats.FormatHandler - Populating OME metadata 2011-04-04 11:21:27,411 1255267 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:21:27,412 1255268 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:21:27,412 1255268 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:21:27,412 1255268 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:21:27,412 1255268 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:21:27,412 1255268 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:21:27,412 1255268 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:21:27,413 1255269 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:21:27,413 1255269 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:21:27,413 1255269 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:21:27,413 1255269 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:21:27,413 1255269 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:21:27,420 1255276 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:21:27,420 1255276 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:21:27,426 1255282 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:21:27,429 1255285 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:21:27,433 1255289 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:21:27,437 1255293 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:21:27,437 1255293 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:21:27,437 1255293 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:21:27,437 1255293 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:21:27,437 1255293 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:21:27,438 1255294 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:21:27,438 1255294 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:21:27,438 1255294 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:21:27,438 1255294 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:21:27,438 1255294 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:21:27,438 1255294 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:21:27,441 1255297 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:21:27,441 1255297 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:21:27,445 1255301 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 100_A11_1_green.tif 2011-04-04 11:21:27,450 1255306 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:21:27,456 1255312 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:21:27,456 1255312 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:21:27,457 1255313 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:21:27,457 1255313 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:21:27,457 1255313 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:21:27,458 1255314 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 100_A11_1_green.tif 2011-04-04 11:21:27,458 1255314 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:21:27,459 1255315 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:21:27,463 1255319 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:21:27,464 1255320 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:21:27,464 1255320 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:21:27,465 1255321 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:21:27,465 1255321 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:21:27,466 1255322 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:21:27,466 1255322 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@fbcbcd,Image:0 2011-04-04 11:21:27,466 1255322 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@7f4425,omero.model.OriginalFile:0 2011-04-04 11:21:27,467 1255323 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@4b4388,Pixels:0 2011-04-04 11:21:27,467 1255323 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@18f5954,Channel:0:0 2011-04-04 11:21:27,468 1255324 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@811340,omero.model.Channel:0:1 2011-04-04 11:21:27,468 1255324 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@549ed0,omero.model.Channel:0:2 2011-04-04 11:21:27,469 1255325 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@181f91a,omero.model.FileAnnotation:0:0 2011-04-04 11:21:27,469 1255325 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@4d0ca0,omero.model.LogicalChannel:0:0 2011-04-04 11:21:27,469 1255325 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@dd550c,omero.model.LogicalChannel:0:1 2011-04-04 11:21:27,470 1255326 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@3202d6,omero.model.LogicalChannel:0:2 2011-04-04 11:21:27,470 1255326 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:21:27,471 1255327 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:21:27,472 1255328 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:751 2011-04-04 11:21:27,472 1255328 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:21:27,472 1255328 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:21:27,473 1255329 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:21:27,542 1255398 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7867 2011-04-04 11:21:27,542 1255398 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:21:27,554 1255410 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:21:28,126 1255982 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:21:28,578 1256434 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:21:29,033 1256889 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:21:29,034 1256890 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:21:29,474 1257330 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:21:29,475 1257331 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:21:29,699 1257555 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:21:29,700 1257556 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:21:29,710 1257566 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:21:41,383 1269239 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:21:41,384 1269240 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 100_A11_1_red.tif 2011-04-04 11:21:42,048 1269904 [2-thread-1] DEBUG loci.common.xml.XMLTools - Content is not allowed in prolog. 2011-04-04 11:21:42,091 1269947 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffDelegateReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\100_A11_1_red.tif) 2011-04-04 11:21:42,091 1269947 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:21:42,101 1269957 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\100_A11_1_red.tif) 2011-04-04 11:21:42,101 1269957 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:21:42,115 1269971 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:21:42,115 1269971 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:21:42,116 1269972 [2-thread-1] INFO loci.formats.FormatHandler - Checking comment style 2011-04-04 11:21:42,134 1269990 [2-thread-1] INFO loci.formats.FormatHandler - Populating OME metadata 2011-04-04 11:21:42,134 1269990 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:21:42,135 1269991 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:21:42,135 1269991 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:21:42,135 1269991 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:21:42,136 1269992 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:21:42,136 1269992 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:21:42,136 1269992 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:21:42,136 1269992 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:21:42,137 1269993 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:21:42,137 1269993 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:21:42,137 1269993 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:21:42,137 1269993 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:21:42,142 1269998 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:21:42,143 1269999 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:21:42,148 1270004 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:21:42,151 1270007 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:21:42,155 1270011 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:21:42,165 1270021 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:21:42,165 1270021 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:21:42,165 1270021 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:21:42,165 1270021 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:21:42,165 1270021 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:21:42,165 1270021 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:21:42,165 1270021 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:21:42,166 1270022 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:21:42,166 1270022 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:21:42,166 1270022 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:21:42,166 1270022 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:21:42,167 1270023 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:21:42,170 1270026 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:21:42,178 1270034 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 100_A11_1_red.tif 2011-04-04 11:21:42,180 1270036 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:21:42,187 1270043 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:21:42,187 1270043 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:21:42,188 1270044 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:21:42,192 1270048 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:21:42,193 1270049 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:21:42,193 1270049 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 100_A11_1_red.tif 2011-04-04 11:21:42,193 1270049 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:21:42,194 1270050 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:21:42,195 1270051 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:21:42,195 1270051 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:21:42,196 1270052 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:21:42,197 1270053 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:21:42,197 1270053 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:21:42,197 1270053 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:21:42,199 1270055 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@17c9157,Image:0 2011-04-04 11:21:42,199 1270055 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@10cdd4,omero.model.OriginalFile:0 2011-04-04 11:21:42,200 1270056 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@33e745,Pixels:0 2011-04-04 11:21:42,200 1270056 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@4916b,Channel:0:0 2011-04-04 11:21:42,201 1270057 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@e74c49,omero.model.Channel:0:1 2011-04-04 11:21:42,201 1270057 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@e73af3,omero.model.Channel:0:2 2011-04-04 11:21:42,202 1270058 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@eb7058,omero.model.FileAnnotation:0:0 2011-04-04 11:21:42,202 1270058 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@18678a,omero.model.LogicalChannel:0:0 2011-04-04 11:21:42,203 1270059 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@11eaf4e,omero.model.LogicalChannel:0:1 2011-04-04 11:21:42,203 1270059 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@ecb06,omero.model.LogicalChannel:0:2 2011-04-04 11:21:42,203 1270059 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:21:42,211 1270067 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:21:42,211 1270067 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:751 2011-04-04 11:21:42,211 1270067 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:21:42,212 1270068 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:21:42,212 1270068 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:21:42,264 1270120 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7868 2011-04-04 11:21:42,265 1270121 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:21:42,272 1270128 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:21:42,848 1270704 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:21:43,326 1271182 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:21:43,821 1271677 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:21:43,822 1271678 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:21:44,268 1272124 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:21:44,269 1272125 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:21:44,468 1272324 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:21:44,481 1272337 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:21:44,485 1272341 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:21:44,583 1272439 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:21:56,184 1284040 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:21:56,184 1284040 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 100_A11_1_yellow.tif 2011-04-04 11:21:56,451 1284307 [2-thread-1] DEBUG loci.common.xml.XMLTools - Content is not allowed in prolog. 2011-04-04 11:21:56,463 1284319 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffDelegateReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\100_A11_1_yellow.tif) 2011-04-04 11:21:56,463 1284319 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:21:56,467 1284323 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\100_A11_1_yellow.tif) 2011-04-04 11:21:56,468 1284324 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:21:56,474 1284330 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:21:56,474 1284330 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:21:56,475 1284331 [2-thread-1] INFO loci.formats.FormatHandler - Checking comment style 2011-04-04 11:21:56,490 1284346 [2-thread-1] INFO loci.formats.FormatHandler - Populating OME metadata 2011-04-04 11:21:56,491 1284347 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:21:56,493 1284349 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:21:56,493 1284349 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:21:56,493 1284349 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:21:56,493 1284349 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:21:56,493 1284349 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:21:56,493 1284349 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:21:56,493 1284349 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:21:56,494 1284350 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:21:56,494 1284350 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:21:56,494 1284350 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:21:56,494 1284350 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:21:56,496 1284352 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:21:56,499 1284355 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:21:56,505 1284361 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:21:56,508 1284364 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:21:56,512 1284368 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:21:56,519 1284375 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:21:56,519 1284375 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:21:56,519 1284375 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:21:56,519 1284375 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:21:56,519 1284375 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:21:56,520 1284376 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:21:56,520 1284376 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:21:56,520 1284376 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:21:56,520 1284376 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:21:56,520 1284376 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:21:56,520 1284376 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:21:56,521 1284377 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:21:56,526 1284382 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:21:56,526 1284382 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 100_A11_1_yellow.tif 2011-04-04 11:21:56,527 1284383 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:21:56,530 1284386 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:21:56,533 1284389 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:21:56,537 1284393 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:21:56,538 1284394 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:21:56,538 1284394 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:21:56,539 1284395 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 100_A11_1_yellow.tif 2011-04-04 11:21:56,539 1284395 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:21:56,539 1284395 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:21:56,540 1284396 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:21:56,541 1284397 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:21:56,541 1284397 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:21:56,545 1284401 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:21:56,546 1284402 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:21:56,546 1284402 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:21:56,547 1284403 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@9e9a07,Image:0 2011-04-04 11:21:56,547 1284403 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@18e2a42,omero.model.OriginalFile:0 2011-04-04 11:21:56,547 1284403 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@1419cf7,Pixels:0 2011-04-04 11:21:56,548 1284404 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@1b47bff,Channel:0:0 2011-04-04 11:21:56,548 1284404 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@b44131,omero.model.Channel:0:1 2011-04-04 11:21:56,549 1284405 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@18361f6,omero.model.Channel:0:2 2011-04-04 11:21:56,549 1284405 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@17429c2,omero.model.FileAnnotation:0:0 2011-04-04 11:21:56,550 1284406 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@483218,omero.model.LogicalChannel:0:0 2011-04-04 11:21:56,550 1284406 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@ac3e4,omero.model.LogicalChannel:0:1 2011-04-04 11:21:56,551 1284407 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@1523de0,omero.model.LogicalChannel:0:2 2011-04-04 11:21:56,551 1284407 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:21:56,552 1284408 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:21:56,552 1284408 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:751 2011-04-04 11:21:56,553 1284409 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:21:56,553 1284409 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:21:56,553 1284409 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:21:56,606 1284462 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7869 2011-04-04 11:21:56,611 1284467 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:21:56,618 1284474 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:21:57,203 1285059 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:21:57,711 1285567 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:21:58,194 1286050 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:21:58,195 1286051 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:21:58,676 1286532 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:21:58,677 1286533 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:21:58,880 1286736 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:21:58,881 1286737 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:21:58,891 1286747 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:22:10,442 1298298 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:22:10,442 1298298 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 100_A2_1_blue.tif 2011-04-04 11:22:10,686 1298542 [2-thread-1] DEBUG loci.common.xml.XMLTools - Content is not allowed in prolog. 2011-04-04 11:22:10,697 1298553 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffDelegateReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\100_A2_1_blue.tif) 2011-04-04 11:22:10,697 1298553 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:22:10,702 1298558 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\100_A2_1_blue.tif) 2011-04-04 11:22:10,702 1298558 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:22:10,710 1298566 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:22:10,710 1298566 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:22:10,711 1298567 [2-thread-1] INFO loci.formats.FormatHandler - Checking comment style 2011-04-04 11:22:10,724 1298580 [2-thread-1] INFO loci.formats.FormatHandler - Populating OME metadata 2011-04-04 11:22:10,724 1298580 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:22:10,725 1298581 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:22:10,725 1298581 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:22:10,725 1298581 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:22:10,725 1298581 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:22:10,726 1298582 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:22:10,726 1298582 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:22:10,726 1298582 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:22:10,726 1298582 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:22:10,726 1298582 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:22:10,726 1298582 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:22:10,726 1298582 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:22:10,729 1298585 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:22:10,733 1298589 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:22:10,738 1298594 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:22:10,741 1298597 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:22:10,745 1298601 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:22:10,749 1298605 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:22:10,749 1298605 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:22:10,749 1298605 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:22:10,749 1298605 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:22:10,749 1298605 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:22:10,750 1298606 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:22:10,750 1298606 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:22:10,750 1298606 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:22:10,750 1298606 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:22:10,750 1298606 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:22:10,750 1298606 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:22:10,753 1298609 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:22:10,757 1298613 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:22:10,761 1298617 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 100_A2_1_blue.tif 2011-04-04 11:22:10,762 1298618 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:22:10,768 1298624 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:22:10,768 1298624 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:22:10,769 1298625 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:22:10,770 1298626 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:22:10,770 1298626 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:22:10,770 1298626 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 100_A2_1_blue.tif 2011-04-04 11:22:10,774 1298630 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:22:10,775 1298631 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:22:10,776 1298632 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:22:10,776 1298632 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:22:10,777 1298633 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:22:10,777 1298633 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:22:10,778 1298634 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:22:10,778 1298634 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:22:10,778 1298634 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@3b0e10,Image:0 2011-04-04 11:22:10,779 1298635 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@c350ae,omero.model.OriginalFile:0 2011-04-04 11:22:10,779 1298635 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@b2dd47,Pixels:0 2011-04-04 11:22:10,780 1298636 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@17c3833,Channel:0:0 2011-04-04 11:22:10,780 1298636 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@8012e6,omero.model.Channel:0:1 2011-04-04 11:22:10,781 1298637 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@12ebf3d,omero.model.Channel:0:2 2011-04-04 11:22:10,781 1298637 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@be9f73,omero.model.FileAnnotation:0:0 2011-04-04 11:22:10,781 1298637 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1a6aaae,omero.model.LogicalChannel:0:0 2011-04-04 11:22:10,782 1298638 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@1d1c812,omero.model.LogicalChannel:0:1 2011-04-04 11:22:10,782 1298638 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@a0fcdc,omero.model.LogicalChannel:0:2 2011-04-04 11:22:10,783 1298639 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:22:10,783 1298639 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:22:10,783 1298639 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:751 2011-04-04 11:22:10,784 1298640 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:22:10,784 1298640 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:22:10,785 1298641 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:22:10,836 1298692 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7870 2011-04-04 11:22:10,837 1298693 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:22:10,845 1298701 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:22:11,418 1299274 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:22:11,905 1299761 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:22:12,360 1300216 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:22:12,361 1300217 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:22:12,798 1300654 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:22:12,799 1300655 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:22:13,024 1300880 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:22:13,025 1300881 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:22:13,035 1300891 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:22:24,762 1312618 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:22:24,763 1312619 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 100_A2_1_green.tif 2011-04-04 11:22:25,116 1312972 [2-thread-1] DEBUG loci.common.xml.XMLTools - Content is not allowed in prolog. 2011-04-04 11:22:25,131 1312987 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffDelegateReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\100_A2_1_green.tif) 2011-04-04 11:22:25,131 1312987 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:22:25,144 1313000 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\100_A2_1_green.tif) 2011-04-04 11:22:25,144 1313000 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:22:25,152 1313008 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:22:25,153 1313009 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:22:25,153 1313009 [2-thread-1] INFO loci.formats.FormatHandler - Checking comment style 2011-04-04 11:22:25,168 1313024 [2-thread-1] INFO loci.formats.FormatHandler - Populating OME metadata 2011-04-04 11:22:25,168 1313024 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:22:25,170 1313026 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:22:25,170 1313026 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:22:25,170 1313026 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:22:25,170 1313026 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:22:25,170 1313026 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:22:25,170 1313026 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:22:25,170 1313026 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:22:25,171 1313027 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:22:25,171 1313027 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:22:25,171 1313027 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:22:25,171 1313027 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:22:25,173 1313029 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:22:25,178 1313034 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:22:25,189 1313045 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:22:25,202 1313058 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:22:25,211 1313067 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:22:25,212 1313068 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:22:25,212 1313068 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:22:25,212 1313068 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:22:25,212 1313068 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:22:25,212 1313068 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:22:25,213 1313069 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:22:25,213 1313069 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:22:25,213 1313069 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:22:25,213 1313069 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:22:25,213 1313069 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:22:25,213 1313069 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:22:25,220 1313076 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:22:25,221 1313077 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:22:25,225 1313081 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 100_A2_1_green.tif 2011-04-04 11:22:25,229 1313085 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:22:25,235 1313091 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:22:25,235 1313091 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:22:25,236 1313092 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:22:25,236 1313092 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:22:25,240 1313096 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:22:25,240 1313096 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 100_A2_1_green.tif 2011-04-04 11:22:25,241 1313097 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:22:25,241 1313097 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:22:25,242 1313098 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:22:25,242 1313098 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:22:25,243 1313099 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:22:25,243 1313099 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:22:25,244 1313100 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:22:25,244 1313100 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:22:25,244 1313100 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@955c85,Image:0 2011-04-04 11:22:25,245 1313101 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@14bfb68,omero.model.OriginalFile:0 2011-04-04 11:22:25,245 1313101 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@1988175,Pixels:0 2011-04-04 11:22:25,246 1313102 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@ce2228,Channel:0:0 2011-04-04 11:22:25,246 1313102 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@7db2f9,omero.model.Channel:0:1 2011-04-04 11:22:25,247 1313103 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@1ef771b,omero.model.Channel:0:2 2011-04-04 11:22:25,247 1313103 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@1233caf,omero.model.FileAnnotation:0:0 2011-04-04 11:22:25,247 1313103 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1f02b4b,omero.model.LogicalChannel:0:0 2011-04-04 11:22:25,248 1313104 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@61b548,omero.model.LogicalChannel:0:1 2011-04-04 11:22:25,248 1313104 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@2ed819,omero.model.LogicalChannel:0:2 2011-04-04 11:22:25,249 1313105 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:22:25,249 1313105 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:22:25,250 1313106 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:751 2011-04-04 11:22:25,250 1313106 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:22:25,251 1313107 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:22:25,251 1313107 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:22:25,301 1313157 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7871 2011-04-04 11:22:25,302 1313158 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:22:25,310 1313166 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:22:25,888 1313744 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:22:26,391 1314247 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:22:26,843 1314699 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:22:26,844 1314700 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:22:27,295 1315151 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:22:27,296 1315152 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:22:27,528 1315384 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:22:27,529 1315385 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:22:27,541 1315397 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:22:39,171 1327027 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:22:39,171 1327027 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 100_A2_1_red.tif 2011-04-04 11:22:39,540 1327396 [2-thread-1] DEBUG loci.common.xml.XMLTools - Content is not allowed in prolog. 2011-04-04 11:22:39,555 1327411 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffDelegateReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\100_A2_1_red.tif) 2011-04-04 11:22:39,556 1327412 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:22:39,564 1327420 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\100_A2_1_red.tif) 2011-04-04 11:22:39,564 1327420 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:22:39,569 1327425 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:22:39,570 1327426 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:22:39,570 1327426 [2-thread-1] INFO loci.formats.FormatHandler - Checking comment style 2011-04-04 11:22:39,597 1327453 [2-thread-1] INFO loci.formats.FormatHandler - Populating OME metadata 2011-04-04 11:22:39,597 1327453 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:22:39,605 1327461 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:22:39,605 1327461 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:22:39,605 1327461 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:22:39,605 1327461 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:22:39,605 1327461 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:22:39,606 1327462 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:22:39,606 1327462 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:22:39,606 1327462 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:22:39,607 1327463 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:22:39,607 1327463 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:22:39,607 1327463 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:22:39,607 1327463 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:22:39,617 1327473 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:22:39,619 1327475 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:22:39,622 1327478 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:22:39,626 1327482 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:22:39,633 1327489 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:22:39,633 1327489 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:22:39,634 1327490 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:22:39,634 1327490 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:22:39,634 1327490 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:22:39,634 1327490 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:22:39,634 1327490 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:22:39,634 1327490 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:22:39,634 1327490 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:22:39,635 1327491 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:22:39,635 1327491 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:22:39,635 1327491 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:22:39,639 1327495 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:22:39,643 1327499 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 100_A2_1_red.tif 2011-04-04 11:22:39,648 1327504 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:22:39,653 1327509 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:22:39,655 1327511 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:22:39,655 1327511 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:22:39,656 1327512 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:22:39,656 1327512 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:22:39,657 1327513 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 100_A2_1_red.tif 2011-04-04 11:22:39,657 1327513 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:22:39,662 1327518 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:22:39,663 1327519 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:22:39,664 1327520 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:22:39,664 1327520 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:22:39,665 1327521 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:22:39,666 1327522 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:22:39,666 1327522 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:22:39,666 1327522 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@4b443a,Image:0 2011-04-04 11:22:39,667 1327523 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@e27547,omero.model.OriginalFile:0 2011-04-04 11:22:39,667 1327523 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@a4fe7c,Pixels:0 2011-04-04 11:22:39,668 1327524 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@109b4cb,Channel:0:0 2011-04-04 11:22:39,668 1327524 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@fb2197,omero.model.Channel:0:1 2011-04-04 11:22:39,669 1327525 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@12b1b6c,omero.model.Channel:0:2 2011-04-04 11:22:39,669 1327525 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@98c0fe,omero.model.FileAnnotation:0:0 2011-04-04 11:22:39,670 1327526 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@8234ec,omero.model.LogicalChannel:0:0 2011-04-04 11:22:39,670 1327526 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@1c1d928,omero.model.LogicalChannel:0:1 2011-04-04 11:22:39,671 1327527 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@15b4432,omero.model.LogicalChannel:0:2 2011-04-04 11:22:39,672 1327528 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:22:39,673 1327529 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:22:39,674 1327530 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:751 2011-04-04 11:22:39,675 1327531 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:22:39,675 1327531 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:22:39,676 1327532 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:22:39,732 1327588 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7872 2011-04-04 11:22:39,733 1327589 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:22:39,740 1327596 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:22:40,346 1328202 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:22:40,836 1328692 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:22:41,331 1329187 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:22:41,332 1329188 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:22:41,802 1329658 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:22:41,808 1329664 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:22:42,062 1329918 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:22:42,070 1329926 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:22:42,080 1329936 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:22:44,582 1332438 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:22:53,584 1341440 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:22:53,585 1341441 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 100_A2_1_yellow.tif 2011-04-04 11:22:53,825 1341681 [2-thread-1] DEBUG loci.common.xml.XMLTools - Content is not allowed in prolog. 2011-04-04 11:22:53,837 1341693 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffDelegateReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\100_A2_1_yellow.tif) 2011-04-04 11:22:53,837 1341693 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:22:53,842 1341698 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\100_A2_1_yellow.tif) 2011-04-04 11:22:53,842 1341698 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:22:53,848 1341704 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:22:53,849 1341705 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:22:53,849 1341705 [2-thread-1] INFO loci.formats.FormatHandler - Checking comment style 2011-04-04 11:22:53,862 1341718 [2-thread-1] INFO loci.formats.FormatHandler - Populating OME metadata 2011-04-04 11:22:53,863 1341719 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:22:53,864 1341720 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:22:53,864 1341720 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:22:53,864 1341720 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:22:53,864 1341720 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:22:53,864 1341720 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:22:53,865 1341721 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:22:53,865 1341721 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:22:53,865 1341721 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:22:53,865 1341721 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:22:53,865 1341721 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:22:53,865 1341721 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:22:53,867 1341723 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:22:53,868 1341724 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:22:53,870 1341726 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:22:53,871 1341727 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:22:53,872 1341728 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:22:53,876 1341732 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:22:53,876 1341732 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:22:53,876 1341732 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:22:53,876 1341732 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:22:53,876 1341732 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:22:53,876 1341732 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:22:53,876 1341732 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:22:53,877 1341733 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:22:53,877 1341733 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:22:53,877 1341733 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:22:53,877 1341733 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:22:53,879 1341735 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:22:53,883 1341739 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:22:53,887 1341743 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 100_A2_1_yellow.tif 2011-04-04 11:22:53,892 1341748 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:22:53,897 1341753 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:22:53,897 1341753 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:22:53,898 1341754 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:22:53,898 1341754 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:22:53,899 1341755 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:22:53,899 1341755 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 100_A2_1_yellow.tif 2011-04-04 11:22:53,900 1341756 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:22:53,903 1341759 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:22:53,904 1341760 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:22:53,905 1341761 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:22:53,905 1341761 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:22:53,906 1341762 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:22:53,906 1341762 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:22:53,907 1341763 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:22:53,907 1341763 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@a079d0,Image:0 2011-04-04 11:22:53,908 1341764 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@1190346,omero.model.OriginalFile:0 2011-04-04 11:22:53,908 1341764 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@d6ecc2,Pixels:0 2011-04-04 11:22:53,909 1341765 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@3351c1,Channel:0:0 2011-04-04 11:22:53,909 1341765 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@1aaf1f5,omero.model.Channel:0:1 2011-04-04 11:22:53,910 1341766 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@d2d623,omero.model.Channel:0:2 2011-04-04 11:22:53,910 1341766 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@b507a,omero.model.FileAnnotation:0:0 2011-04-04 11:22:53,910 1341766 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@17392df,omero.model.LogicalChannel:0:0 2011-04-04 11:22:53,911 1341767 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@d6d53c,omero.model.LogicalChannel:0:1 2011-04-04 11:22:53,911 1341767 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@12feafc,omero.model.LogicalChannel:0:2 2011-04-04 11:22:53,912 1341768 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:22:53,912 1341768 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:22:53,913 1341769 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:751 2011-04-04 11:22:53,913 1341769 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:22:53,913 1341769 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:22:53,914 1341770 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:22:53,987 1341843 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7873 2011-04-04 11:22:53,988 1341844 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:22:53,998 1341854 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:22:54,575 1342431 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:22:55,056 1342912 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:22:55,528 1343384 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:22:55,528 1343384 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:22:55,988 1343844 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:22:55,989 1343845 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:22:56,203 1344059 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:22:56,203 1344059 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:22:56,211 1344067 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:23:07,941 1355797 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:23:07,942 1355798 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 103_A12_1_blue.tif 2011-04-04 11:23:08,443 1356299 [2-thread-1] DEBUG loci.common.xml.XMLTools - Content is not allowed in prolog. 2011-04-04 11:23:08,453 1356309 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffDelegateReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\103_A12_1_blue.tif) 2011-04-04 11:23:08,454 1356310 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:23:08,459 1356315 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\103_A12_1_blue.tif) 2011-04-04 11:23:08,459 1356315 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:23:08,465 1356321 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:23:08,466 1356322 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:23:08,466 1356322 [2-thread-1] INFO loci.formats.FormatHandler - Checking comment style 2011-04-04 11:23:08,479 1356335 [2-thread-1] INFO loci.formats.FormatHandler - Populating OME metadata 2011-04-04 11:23:08,480 1356336 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:23:08,481 1356337 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:23:08,481 1356337 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:23:08,481 1356337 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:23:08,481 1356337 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:23:08,481 1356337 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:23:08,481 1356337 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:23:08,481 1356337 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:23:08,482 1356338 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:23:08,482 1356338 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:23:08,482 1356338 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:23:08,482 1356338 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:23:08,483 1356339 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:23:08,488 1356344 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:23:08,491 1356347 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:23:08,494 1356350 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:23:08,498 1356354 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:23:08,502 1356358 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:23:08,502 1356358 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:23:08,502 1356358 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:23:08,502 1356358 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:23:08,502 1356358 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:23:08,502 1356358 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:23:08,502 1356358 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:23:08,503 1356359 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:23:08,503 1356359 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:23:08,503 1356359 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:23:08,503 1356359 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:23:08,505 1356361 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:23:08,509 1356365 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:23:08,513 1356369 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 103_A12_1_blue.tif 2011-04-04 11:23:08,517 1356373 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:23:08,523 1356379 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:23:08,523 1356379 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:23:08,524 1356380 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:23:08,524 1356380 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:23:08,525 1356381 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:23:08,525 1356381 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 103_A12_1_blue.tif 2011-04-04 11:23:08,526 1356382 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:23:08,530 1356386 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:23:08,530 1356386 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:23:08,531 1356387 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:23:08,531 1356387 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:23:08,533 1356389 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:23:08,534 1356390 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:23:08,534 1356390 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:23:08,535 1356391 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@1e89f1b,Image:0 2011-04-04 11:23:08,535 1356391 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@46e311,omero.model.OriginalFile:0 2011-04-04 11:23:08,535 1356391 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@15ebf57,Pixels:0 2011-04-04 11:23:08,536 1356392 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@9bbe68,Channel:0:0 2011-04-04 11:23:08,536 1356392 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@1708f9,omero.model.Channel:0:1 2011-04-04 11:23:08,537 1356393 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@dfb094,omero.model.Channel:0:2 2011-04-04 11:23:08,537 1356393 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@93f455,omero.model.FileAnnotation:0:0 2011-04-04 11:23:08,537 1356393 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@743294,omero.model.LogicalChannel:0:0 2011-04-04 11:23:08,538 1356394 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@5c4833,omero.model.LogicalChannel:0:1 2011-04-04 11:23:08,538 1356394 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@393296,omero.model.LogicalChannel:0:2 2011-04-04 11:23:08,539 1356395 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:23:08,539 1356395 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:23:08,540 1356396 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:751 2011-04-04 11:23:08,540 1356396 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:23:08,540 1356396 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:23:08,541 1356397 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:23:08,592 1356448 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7874 2011-04-04 11:23:08,593 1356449 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:23:08,600 1356456 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:23:09,161 1357017 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:23:09,643 1357499 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:23:10,132 1357988 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:23:10,133 1357989 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:23:10,600 1358456 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:23:10,601 1358457 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:23:10,802 1358658 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:23:10,803 1358659 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:23:10,817 1358673 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:23:22,172 1370028 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:23:22,173 1370029 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 103_A12_1_green.tif 2011-04-04 11:23:22,475 1370331 [2-thread-1] DEBUG loci.common.xml.XMLTools - Content is not allowed in prolog. 2011-04-04 11:23:22,486 1370342 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffDelegateReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\103_A12_1_green.tif) 2011-04-04 11:23:22,486 1370342 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:23:22,491 1370347 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\103_A12_1_green.tif) 2011-04-04 11:23:22,492 1370348 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:23:22,499 1370355 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:23:22,499 1370355 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:23:22,499 1370355 [2-thread-1] INFO loci.formats.FormatHandler - Checking comment style 2011-04-04 11:23:22,514 1370370 [2-thread-1] INFO loci.formats.FormatHandler - Populating OME metadata 2011-04-04 11:23:22,514 1370370 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:23:22,516 1370372 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:23:22,516 1370372 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:23:22,516 1370372 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:23:22,516 1370372 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:23:22,516 1370372 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:23:22,517 1370373 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:23:22,517 1370373 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:23:22,517 1370373 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:23:22,517 1370373 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:23:22,517 1370373 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:23:22,517 1370373 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:23:22,518 1370374 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:23:22,521 1370377 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:23:22,526 1370382 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:23:22,532 1370388 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:23:22,533 1370389 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:23:22,537 1370393 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:23:22,537 1370393 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:23:22,537 1370393 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:23:22,537 1370393 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:23:22,537 1370393 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:23:22,538 1370394 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:23:22,538 1370394 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:23:22,538 1370394 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:23:22,538 1370394 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:23:22,538 1370394 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:23:22,538 1370394 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:23:22,544 1370400 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:23:22,545 1370401 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:23:22,548 1370404 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 103_A12_1_green.tif 2011-04-04 11:23:22,553 1370409 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:23:22,560 1370416 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:23:22,561 1370417 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:23:22,562 1370418 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:23:22,562 1370418 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:23:22,566 1370422 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:23:22,566 1370422 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 103_A12_1_green.tif 2011-04-04 11:23:22,567 1370423 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:23:22,567 1370423 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:23:22,568 1370424 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:23:22,568 1370424 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:23:22,569 1370425 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:23:22,569 1370425 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:23:22,570 1370426 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:23:22,570 1370426 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:23:22,571 1370427 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@5ffb9,Image:0 2011-04-04 11:23:22,571 1370427 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@48a158,omero.model.OriginalFile:0 2011-04-04 11:23:22,572 1370428 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@bcf04e,Pixels:0 2011-04-04 11:23:22,572 1370428 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@1812b51,Channel:0:0 2011-04-04 11:23:22,572 1370428 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@1449aa1,omero.model.Channel:0:1 2011-04-04 11:23:22,573 1370429 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@15ebe2d,omero.model.Channel:0:2 2011-04-04 11:23:22,573 1370429 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@eacb9c,omero.model.FileAnnotation:0:0 2011-04-04 11:23:22,574 1370430 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@152fafd,omero.model.LogicalChannel:0:0 2011-04-04 11:23:22,574 1370430 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@627178,omero.model.LogicalChannel:0:1 2011-04-04 11:23:22,575 1370431 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@1606e1f,omero.model.LogicalChannel:0:2 2011-04-04 11:23:22,575 1370431 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:23:22,576 1370432 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:23:22,577 1370433 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:751 2011-04-04 11:23:22,577 1370433 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:23:22,577 1370433 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:23:22,578 1370434 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:23:22,633 1370489 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7875 2011-04-04 11:23:22,633 1370489 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:23:22,644 1370500 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:23:23,206 1371062 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:23:23,696 1371552 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:23:24,172 1372028 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:23:24,173 1372029 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:23:24,623 1372479 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:23:24,624 1372480 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:23:24,827 1372683 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:23:24,828 1372684 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:23:24,839 1372695 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:23:36,668 1384524 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:23:36,668 1384524 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 103_A12_1_red.tif 2011-04-04 11:23:36,971 1384827 [2-thread-1] DEBUG loci.common.xml.XMLTools - Content is not allowed in prolog. 2011-04-04 11:23:36,982 1384838 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffDelegateReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\103_A12_1_red.tif) 2011-04-04 11:23:36,982 1384838 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:23:36,987 1384843 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\103_A12_1_red.tif) 2011-04-04 11:23:36,987 1384843 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:23:36,993 1384849 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:23:36,994 1384850 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:23:36,994 1384850 [2-thread-1] INFO loci.formats.FormatHandler - Checking comment style 2011-04-04 11:23:37,007 1384863 [2-thread-1] INFO loci.formats.FormatHandler - Populating OME metadata 2011-04-04 11:23:37,008 1384864 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:23:37,009 1384865 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:23:37,009 1384865 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:23:37,009 1384865 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:23:37,009 1384865 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:23:37,009 1384865 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:23:37,010 1384866 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:23:37,010 1384866 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:23:37,010 1384866 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:23:37,010 1384866 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:23:37,010 1384866 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:23:37,011 1384867 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:23:37,013 1384869 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:23:37,021 1384877 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:23:37,022 1384878 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:23:37,026 1384882 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:23:37,030 1384886 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:23:37,034 1384890 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:23:37,034 1384890 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:23:37,034 1384890 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:23:37,034 1384890 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:23:37,034 1384890 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:23:37,035 1384891 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:23:37,035 1384891 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:23:37,035 1384891 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:23:37,035 1384891 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:23:37,035 1384891 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:23:37,035 1384891 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:23:37,038 1384894 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:23:37,042 1384898 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:23:37,046 1384902 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 103_A12_1_red.tif 2011-04-04 11:23:37,050 1384906 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:23:37,055 1384911 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:23:37,056 1384912 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:23:37,057 1384913 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:23:37,057 1384913 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:23:37,058 1384914 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:23:37,058 1384914 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 103_A12_1_red.tif 2011-04-04 11:23:37,058 1384914 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:23:37,063 1384919 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:23:37,064 1384920 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:23:37,064 1384920 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:23:37,065 1384921 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:23:37,065 1384921 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:23:37,066 1384922 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:23:37,066 1384922 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:23:37,066 1384922 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@6897b6,Image:0 2011-04-04 11:23:37,067 1384923 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@1582674,omero.model.OriginalFile:0 2011-04-04 11:23:37,067 1384923 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@27491a,Pixels:0 2011-04-04 11:23:37,068 1384924 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@1c4fb04,Channel:0:0 2011-04-04 11:23:37,068 1384924 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@1c6d169,omero.model.Channel:0:1 2011-04-04 11:23:37,069 1384925 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@1abbe6c,omero.model.Channel:0:2 2011-04-04 11:23:37,069 1384925 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@195f1cc,omero.model.FileAnnotation:0:0 2011-04-04 11:23:37,069 1384925 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@9310d2,omero.model.LogicalChannel:0:0 2011-04-04 11:23:37,070 1384926 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@1fc894e,omero.model.LogicalChannel:0:1 2011-04-04 11:23:37,071 1384927 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@feaf9c,omero.model.LogicalChannel:0:2 2011-04-04 11:23:37,071 1384927 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:23:37,071 1384927 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:23:37,072 1384928 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:751 2011-04-04 11:23:37,072 1384928 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:23:37,073 1384929 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:23:37,073 1384929 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:23:37,154 1385010 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7876 2011-04-04 11:23:37,155 1385011 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:23:37,162 1385018 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:23:37,741 1385597 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:23:38,228 1386084 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:23:38,677 1386533 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:23:38,678 1386534 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:23:39,159 1387015 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:23:39,160 1387016 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:23:39,355 1387211 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:23:39,356 1387212 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:23:39,361 1387217 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:23:44,582 1392438 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:23:50,685 1398541 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:23:50,686 1398542 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 103_A12_1_yellow.tif 2011-04-04 11:23:51,169 1399025 [2-thread-1] DEBUG loci.common.xml.XMLTools - Content is not allowed in prolog. 2011-04-04 11:23:51,179 1399035 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffDelegateReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\103_A12_1_yellow.tif) 2011-04-04 11:23:51,179 1399035 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:23:51,185 1399041 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\103_A12_1_yellow.tif) 2011-04-04 11:23:51,185 1399041 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:23:51,191 1399047 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:23:51,191 1399047 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:23:51,191 1399047 [2-thread-1] INFO loci.formats.FormatHandler - Checking comment style 2011-04-04 11:23:51,204 1399060 [2-thread-1] INFO loci.formats.FormatHandler - Populating OME metadata 2011-04-04 11:23:51,204 1399060 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:23:51,206 1399062 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:23:51,206 1399062 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:23:51,206 1399062 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:23:51,206 1399062 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:23:51,206 1399062 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:23:51,206 1399062 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:23:51,206 1399062 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:23:51,206 1399062 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:23:51,206 1399062 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:23:51,207 1399063 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:23:51,207 1399063 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:23:51,208 1399064 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:23:51,212 1399068 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:23:51,216 1399072 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:23:51,219 1399075 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:23:51,222 1399078 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:23:51,226 1399082 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:23:51,226 1399082 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:23:51,226 1399082 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:23:51,226 1399082 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:23:51,226 1399082 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:23:51,227 1399083 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:23:51,227 1399083 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:23:51,227 1399083 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:23:51,227 1399083 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:23:51,227 1399083 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:23:51,227 1399083 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:23:51,229 1399085 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:23:51,233 1399089 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:23:51,236 1399092 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 103_A12_1_yellow.tif 2011-04-04 11:23:51,240 1399096 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:23:51,247 1399103 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:23:51,248 1399104 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:23:51,249 1399105 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:23:51,249 1399105 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:23:51,249 1399105 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:23:51,250 1399106 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 103_A12_1_yellow.tif 2011-04-04 11:23:51,255 1399111 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:23:51,255 1399111 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:23:51,256 1399112 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:23:51,256 1399112 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:23:51,257 1399113 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:23:51,257 1399113 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:23:51,258 1399114 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:23:51,258 1399114 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:23:51,259 1399115 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@1a601b0,Image:0 2011-04-04 11:23:51,259 1399115 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@28573f,omero.model.OriginalFile:0 2011-04-04 11:23:51,260 1399116 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@15f860b,Pixels:0 2011-04-04 11:23:51,260 1399116 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@182f364,Channel:0:0 2011-04-04 11:23:51,260 1399116 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@3648b1,omero.model.Channel:0:1 2011-04-04 11:23:51,261 1399117 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@b7d79e,omero.model.Channel:0:2 2011-04-04 11:23:51,262 1399118 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@90110a,omero.model.FileAnnotation:0:0 2011-04-04 11:23:51,262 1399118 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1c2b01c,omero.model.LogicalChannel:0:0 2011-04-04 11:23:51,262 1399118 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@12f2476,omero.model.LogicalChannel:0:1 2011-04-04 11:23:51,263 1399119 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@7c1f2f,omero.model.LogicalChannel:0:2 2011-04-04 11:23:51,263 1399119 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:23:51,263 1399119 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:23:51,264 1399120 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:751 2011-04-04 11:23:51,264 1399120 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:23:51,265 1399121 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:23:51,265 1399121 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:23:51,315 1399171 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7877 2011-04-04 11:23:51,318 1399174 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:23:51,324 1399180 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:23:51,894 1399750 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:23:52,380 1400236 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:23:52,853 1400709 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:23:52,854 1400710 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:23:53,310 1401166 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:23:53,311 1401167 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:23:53,524 1401380 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:23:53,524 1401380 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:23:53,533 1401389 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:24:05,210 1413066 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:24:05,210 1413066 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 116_D2_1_blue.tif 2011-04-04 11:24:05,450 1413306 [2-thread-1] DEBUG loci.common.xml.XMLTools - Content is not allowed in prolog. 2011-04-04 11:24:05,463 1413319 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffDelegateReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\116_D2_1_blue.tif) 2011-04-04 11:24:05,463 1413319 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:24:05,481 1413337 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\116_D2_1_blue.tif) 2011-04-04 11:24:05,482 1413338 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:24:05,499 1413355 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:24:05,499 1413355 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:24:05,499 1413355 [2-thread-1] INFO loci.formats.FormatHandler - Checking comment style 2011-04-04 11:24:05,514 1413370 [2-thread-1] INFO loci.formats.FormatHandler - Populating OME metadata 2011-04-04 11:24:05,515 1413371 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:24:05,518 1413374 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:24:05,518 1413374 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:24:05,518 1413374 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:24:05,518 1413374 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:24:05,518 1413374 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:24:05,518 1413374 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:24:05,518 1413374 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:24:05,519 1413375 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:24:05,519 1413375 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:24:05,519 1413375 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:24:05,519 1413375 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:24:05,526 1413382 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:24:05,532 1413388 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:24:05,534 1413390 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:24:05,535 1413391 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:24:05,536 1413392 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:24:05,537 1413393 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:24:05,537 1413393 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:24:05,537 1413393 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:24:05,537 1413393 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:24:05,537 1413393 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:24:05,538 1413394 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:24:05,538 1413394 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:24:05,538 1413394 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:24:05,538 1413394 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:24:05,538 1413394 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:24:05,538 1413394 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:24:05,539 1413395 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:24:05,540 1413396 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:24:05,540 1413396 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 116_D2_1_blue.tif 2011-04-04 11:24:05,541 1413397 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:24:05,544 1413400 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:24:05,548 1413404 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:24:05,549 1413405 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:24:05,549 1413405 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:24:05,550 1413406 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:24:05,550 1413406 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 116_D2_1_blue.tif 2011-04-04 11:24:05,550 1413406 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:24:05,551 1413407 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:24:05,551 1413407 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:24:05,552 1413408 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:24:05,557 1413413 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:24:05,558 1413414 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:24:05,558 1413414 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:24:05,558 1413414 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:24:05,559 1413415 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@ac6995,Image:0 2011-04-04 11:24:05,559 1413415 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@d20ad8,omero.model.OriginalFile:0 2011-04-04 11:24:05,560 1413416 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@1a6d101,Pixels:0 2011-04-04 11:24:05,560 1413416 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@d0ba03,Channel:0:0 2011-04-04 11:24:05,561 1413417 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@1e2b8a0,omero.model.Channel:0:1 2011-04-04 11:24:05,561 1413417 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@a1ade8,omero.model.Channel:0:2 2011-04-04 11:24:05,562 1413418 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@18a665,omero.model.FileAnnotation:0:0 2011-04-04 11:24:05,562 1413418 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@732600,omero.model.LogicalChannel:0:0 2011-04-04 11:24:05,563 1413419 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@10b7f7,omero.model.LogicalChannel:0:1 2011-04-04 11:24:05,563 1413419 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@12a4aec,omero.model.LogicalChannel:0:2 2011-04-04 11:24:05,564 1413420 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:24:05,564 1413420 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:24:05,565 1413421 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:751 2011-04-04 11:24:05,565 1413421 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:24:05,566 1413422 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:24:05,566 1413422 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:24:05,616 1413472 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7878 2011-04-04 11:24:05,616 1413472 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:24:05,623 1413479 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:24:06,238 1414094 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:24:06,689 1414545 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:24:07,182 1415038 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:24:07,183 1415039 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:24:07,651 1415507 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:24:07,652 1415508 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:24:07,846 1415702 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:24:07,847 1415703 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:24:07,858 1415714 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:24:19,272 1427128 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:24:19,274 1427130 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 116_D2_1_green.tif 2011-04-04 11:24:19,559 1427415 [2-thread-1] DEBUG loci.common.xml.XMLTools - Content is not allowed in prolog. 2011-04-04 11:24:19,570 1427426 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffDelegateReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\116_D2_1_green.tif) 2011-04-04 11:24:19,570 1427426 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:24:19,576 1427432 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\116_D2_1_green.tif) 2011-04-04 11:24:19,576 1427432 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:24:19,583 1427439 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:24:19,583 1427439 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:24:19,584 1427440 [2-thread-1] INFO loci.formats.FormatHandler - Checking comment style 2011-04-04 11:24:19,597 1427453 [2-thread-1] INFO loci.formats.FormatHandler - Populating OME metadata 2011-04-04 11:24:19,597 1427453 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:24:19,598 1427454 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:24:19,598 1427454 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:24:19,598 1427454 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:24:19,598 1427454 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:24:19,598 1427454 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:24:19,599 1427455 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:24:19,599 1427455 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:24:19,599 1427455 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:24:19,599 1427455 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:24:19,599 1427455 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:24:19,599 1427455 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:24:19,601 1427457 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:24:19,608 1427464 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:24:19,610 1427466 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:24:19,614 1427470 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:24:19,621 1427477 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:24:19,623 1427479 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:24:19,623 1427479 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:24:19,623 1427479 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:24:19,623 1427479 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:24:19,623 1427479 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:24:19,623 1427479 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:24:19,623 1427479 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:24:19,624 1427480 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:24:19,624 1427480 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:24:19,624 1427480 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:24:19,624 1427480 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:24:19,624 1427480 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:24:19,625 1427481 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:24:19,625 1427481 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 116_D2_1_green.tif 2011-04-04 11:24:19,627 1427483 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:24:19,630 1427486 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:24:19,631 1427487 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:24:19,632 1427488 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:24:19,633 1427489 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:24:19,633 1427489 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:24:19,633 1427489 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 116_D2_1_green.tif 2011-04-04 11:24:19,634 1427490 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:24:19,634 1427490 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:24:19,635 1427491 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:24:19,636 1427492 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:24:19,636 1427492 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:24:19,637 1427493 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:24:19,637 1427493 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:24:19,638 1427494 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:24:19,638 1427494 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@c774f0,Image:0 2011-04-04 11:24:19,642 1427498 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@4e6efc,omero.model.OriginalFile:0 2011-04-04 11:24:19,643 1427499 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@d60f6e,Pixels:0 2011-04-04 11:24:19,643 1427499 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@163f0da,Channel:0:0 2011-04-04 11:24:19,644 1427500 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@103c25f,omero.model.Channel:0:1 2011-04-04 11:24:19,644 1427500 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@1a52ad1,omero.model.Channel:0:2 2011-04-04 11:24:19,644 1427500 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@17b6249,omero.model.FileAnnotation:0:0 2011-04-04 11:24:19,645 1427501 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@bdf256,omero.model.LogicalChannel:0:0 2011-04-04 11:24:19,645 1427501 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@156adde,omero.model.LogicalChannel:0:1 2011-04-04 11:24:19,646 1427502 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@44f218,omero.model.LogicalChannel:0:2 2011-04-04 11:24:19,646 1427502 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:24:19,647 1427503 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:24:19,647 1427503 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:751 2011-04-04 11:24:19,647 1427503 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:24:19,648 1427504 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:24:19,648 1427504 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:24:19,699 1427555 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7879 2011-04-04 11:24:19,700 1427556 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:24:19,706 1427562 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:24:20,270 1428126 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:24:20,752 1428608 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:24:21,237 1429093 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:24:21,238 1429094 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:24:21,698 1429554 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:24:21,699 1429555 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:24:21,912 1429768 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:24:21,913 1429769 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:24:21,920 1429776 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:24:33,370 1441226 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:24:33,371 1441227 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 116_D2_1_red.tif 2011-04-04 11:24:33,644 1441500 [2-thread-1] DEBUG loci.common.xml.XMLTools - Content is not allowed in prolog. 2011-04-04 11:24:33,654 1441510 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffDelegateReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\116_D2_1_red.tif) 2011-04-04 11:24:33,654 1441510 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:24:33,660 1441516 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\116_D2_1_red.tif) 2011-04-04 11:24:33,660 1441516 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:24:33,666 1441522 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:24:33,666 1441522 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:24:33,666 1441522 [2-thread-1] INFO loci.formats.FormatHandler - Checking comment style 2011-04-04 11:24:33,679 1441535 [2-thread-1] INFO loci.formats.FormatHandler - Populating OME metadata 2011-04-04 11:24:33,679 1441535 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:24:33,680 1441536 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:24:33,681 1441537 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:24:33,681 1441537 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:24:33,681 1441537 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:24:33,681 1441537 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:24:33,681 1441537 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:24:33,681 1441537 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:24:33,681 1441537 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:24:33,681 1441537 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:24:33,682 1441538 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:24:33,682 1441538 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:24:33,684 1441540 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:24:33,689 1441545 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:24:33,691 1441547 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:24:33,692 1441548 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:24:33,693 1441549 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:24:33,697 1441553 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:24:33,697 1441553 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:24:33,697 1441553 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:24:33,697 1441553 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:24:33,697 1441553 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:24:33,698 1441554 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:24:33,698 1441554 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:24:33,698 1441554 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:24:33,698 1441554 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:24:33,698 1441554 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:24:33,698 1441554 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:24:33,701 1441557 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:24:33,706 1441562 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:24:33,706 1441562 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 116_D2_1_red.tif 2011-04-04 11:24:33,711 1441567 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:24:33,717 1441573 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:24:33,718 1441574 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:24:33,718 1441574 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:24:33,719 1441575 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:24:33,719 1441575 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:24:33,719 1441575 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 116_D2_1_red.tif 2011-04-04 11:24:33,720 1441576 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:24:33,720 1441576 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:24:33,725 1441581 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:24:33,725 1441581 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:24:33,726 1441582 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:24:33,727 1441583 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:24:33,727 1441583 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:24:33,728 1441584 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:24:33,728 1441584 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@649f9f,Image:0 2011-04-04 11:24:33,729 1441585 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@53a1b3,omero.model.OriginalFile:0 2011-04-04 11:24:33,729 1441585 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@a6131,Pixels:0 2011-04-04 11:24:33,729 1441585 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@70068a,Channel:0:0 2011-04-04 11:24:33,730 1441586 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@19f1aa5,omero.model.Channel:0:1 2011-04-04 11:24:33,730 1441586 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@cd7fdb,omero.model.Channel:0:2 2011-04-04 11:24:33,731 1441587 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@12d4b9c,omero.model.FileAnnotation:0:0 2011-04-04 11:24:33,731 1441587 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@46f6e4,omero.model.LogicalChannel:0:0 2011-04-04 11:24:33,732 1441588 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@167a,omero.model.LogicalChannel:0:1 2011-04-04 11:24:33,732 1441588 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@9386c7,omero.model.LogicalChannel:0:2 2011-04-04 11:24:33,733 1441589 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:24:33,733 1441589 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:24:33,734 1441590 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:751 2011-04-04 11:24:33,734 1441590 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:24:33,734 1441590 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:24:33,735 1441591 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:24:33,788 1441644 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7880 2011-04-04 11:24:33,788 1441644 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:24:33,794 1441650 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:24:34,623 1442479 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:24:35,115 1442971 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:24:35,577 1443433 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:24:35,578 1443434 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:24:35,998 1443854 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:24:35,999 1443855 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:24:36,232 1444088 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:24:36,232 1444088 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:24:36,237 1444093 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:24:44,580 1452436 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:24:47,728 1455584 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:24:47,729 1455585 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 116_D2_1_yellow.tif 2011-04-04 11:24:48,305 1456161 [2-thread-1] DEBUG loci.common.xml.XMLTools - Content is not allowed in prolog. 2011-04-04 11:24:48,316 1456172 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffDelegateReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\116_D2_1_yellow.tif) 2011-04-04 11:24:48,316 1456172 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:24:48,321 1456177 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\116_D2_1_yellow.tif) 2011-04-04 11:24:48,321 1456177 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:24:48,327 1456183 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:24:48,327 1456183 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:24:48,327 1456183 [2-thread-1] INFO loci.formats.FormatHandler - Checking comment style 2011-04-04 11:24:48,340 1456196 [2-thread-1] INFO loci.formats.FormatHandler - Populating OME metadata 2011-04-04 11:24:48,341 1456197 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:24:48,343 1456199 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:24:48,343 1456199 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:24:48,343 1456199 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:24:48,343 1456199 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:24:48,343 1456199 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:24:48,343 1456199 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:24:48,343 1456199 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:24:48,344 1456200 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:24:48,344 1456200 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:24:48,344 1456200 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:24:48,344 1456200 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:24:48,345 1456201 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:24:48,349 1456205 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:24:48,354 1456210 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:24:48,355 1456211 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:24:48,359 1456215 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:24:48,363 1456219 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:24:48,363 1456219 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:24:48,363 1456219 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:24:48,363 1456219 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:24:48,363 1456219 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:24:48,364 1456220 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:24:48,364 1456220 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:24:48,364 1456220 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:24:48,364 1456220 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:24:48,364 1456220 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:24:48,364 1456220 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:24:48,366 1456222 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:24:48,370 1456226 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:24:48,374 1456230 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 116_D2_1_yellow.tif 2011-04-04 11:24:48,375 1456231 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:24:48,380 1456236 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:24:48,380 1456236 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:24:48,381 1456237 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:24:48,381 1456237 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:24:48,382 1456238 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:24:48,382 1456238 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 116_D2_1_yellow.tif 2011-04-04 11:24:48,382 1456238 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:24:48,387 1456243 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:24:48,388 1456244 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:24:48,388 1456244 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:24:48,389 1456245 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:24:48,389 1456245 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:24:48,390 1456246 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:24:48,390 1456246 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:24:48,390 1456246 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@56103e,Image:0 2011-04-04 11:24:48,391 1456247 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@10ac317,omero.model.OriginalFile:0 2011-04-04 11:24:48,391 1456247 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@152a1b7,Pixels:0 2011-04-04 11:24:48,392 1456248 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@ae389d,Channel:0:0 2011-04-04 11:24:48,392 1456248 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@538d04,omero.model.Channel:0:1 2011-04-04 11:24:48,392 1456248 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@fd3fba,omero.model.Channel:0:2 2011-04-04 11:24:48,393 1456249 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@1b96457,omero.model.FileAnnotation:0:0 2011-04-04 11:24:48,393 1456249 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1d7e765,omero.model.LogicalChannel:0:0 2011-04-04 11:24:48,394 1456250 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@173c52f,omero.model.LogicalChannel:0:1 2011-04-04 11:24:48,394 1456250 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@1b843a4,omero.model.LogicalChannel:0:2 2011-04-04 11:24:48,395 1456251 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:24:48,395 1456251 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:24:48,396 1456252 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:751 2011-04-04 11:24:48,396 1456252 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:24:48,396 1456252 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:24:48,397 1456253 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:24:48,441 1456297 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7881 2011-04-04 11:24:48,447 1456303 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:24:48,454 1456310 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:24:49,015 1456871 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:24:49,465 1457321 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:24:49,937 1457793 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:24:49,937 1457793 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:24:50,394 1458250 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:24:50,395 1458251 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:24:50,609 1458465 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:24:50,610 1458466 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:24:50,620 1458476 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:25:02,198 1470054 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:25:02,199 1470055 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 21_H8_1_blue.tif 2011-04-04 11:25:02,408 1470264 [2-thread-1] DEBUG loci.common.xml.XMLTools - Content is not allowed in prolog. 2011-04-04 11:25:02,418 1470274 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffDelegateReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\21_H8_1_blue.tif) 2011-04-04 11:25:02,418 1470274 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:25:02,423 1470279 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\21_H8_1_blue.tif) 2011-04-04 11:25:02,424 1470280 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:25:02,429 1470285 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:25:02,430 1470286 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:25:02,430 1470286 [2-thread-1] INFO loci.formats.FormatHandler - Checking comment style 2011-04-04 11:25:02,443 1470299 [2-thread-1] INFO loci.formats.FormatHandler - Populating OME metadata 2011-04-04 11:25:02,443 1470299 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:25:02,444 1470300 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:25:02,444 1470300 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:25:02,444 1470300 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:25:02,444 1470300 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:25:02,444 1470300 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:25:02,445 1470301 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:25:02,445 1470301 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:25:02,445 1470301 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:25:02,445 1470301 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:25:02,445 1470301 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:25:02,445 1470301 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:25:02,448 1470304 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:25:02,452 1470308 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:25:02,458 1470314 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:25:02,461 1470317 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:25:02,466 1470322 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:25:02,475 1470331 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:25:02,475 1470331 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:25:02,475 1470331 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:25:02,475 1470331 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:25:02,475 1470331 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:25:02,476 1470332 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:25:02,476 1470332 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:25:02,476 1470332 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:25:02,476 1470332 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:25:02,476 1470332 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:25:02,476 1470332 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:25:02,477 1470333 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:25:02,482 1470338 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:25:02,490 1470346 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 21_H8_1_blue.tif 2011-04-04 11:25:02,491 1470347 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:25:02,497 1470353 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:25:02,498 1470354 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:25:02,498 1470354 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:25:02,499 1470355 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:25:02,499 1470355 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:25:02,499 1470355 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 21_H8_1_blue.tif 2011-04-04 11:25:02,500 1470356 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:25:02,500 1470356 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:25:02,505 1470361 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:25:02,506 1470362 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:25:02,506 1470362 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:25:02,507 1470363 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:25:02,507 1470363 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:25:02,507 1470363 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:25:02,508 1470364 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@132f2b2,Image:0 2011-04-04 11:25:02,508 1470364 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@44e76c,omero.model.OriginalFile:0 2011-04-04 11:25:02,509 1470365 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@1d226a7,Pixels:0 2011-04-04 11:25:02,509 1470365 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@12b644e,Channel:0:0 2011-04-04 11:25:02,510 1470366 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@123a349,omero.model.Channel:0:1 2011-04-04 11:25:02,510 1470366 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@19c705e,omero.model.Channel:0:2 2011-04-04 11:25:02,510 1470366 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@ba168e,omero.model.FileAnnotation:0:0 2011-04-04 11:25:02,511 1470367 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1aac3f8,omero.model.LogicalChannel:0:0 2011-04-04 11:25:02,511 1470367 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@1becb3,omero.model.LogicalChannel:0:1 2011-04-04 11:25:02,512 1470368 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@1aa0933,omero.model.LogicalChannel:0:2 2011-04-04 11:25:02,512 1470368 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:25:02,513 1470369 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:25:02,513 1470369 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:751 2011-04-04 11:25:02,514 1470370 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:25:02,514 1470370 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:25:02,515 1470371 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:25:02,565 1470421 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7882 2011-04-04 11:25:02,566 1470422 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:25:02,572 1470428 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:25:03,142 1470998 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:25:03,629 1471485 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:25:04,078 1471934 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:25:04,078 1471934 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:25:04,533 1472389 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:25:04,535 1472391 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:25:04,792 1472648 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:25:04,793 1472649 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:25:04,803 1472659 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:25:16,363 1484219 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:25:16,364 1484220 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 21_H8_1_green.tif 2011-04-04 11:25:16,602 1484458 [2-thread-1] DEBUG loci.common.xml.XMLTools - Content is not allowed in prolog. 2011-04-04 11:25:16,613 1484469 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffDelegateReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\21_H8_1_green.tif) 2011-04-04 11:25:16,613 1484469 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:25:16,618 1484474 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\21_H8_1_green.tif) 2011-04-04 11:25:16,618 1484474 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:25:16,623 1484479 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:25:16,624 1484480 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:25:16,624 1484480 [2-thread-1] INFO loci.formats.FormatHandler - Checking comment style 2011-04-04 11:25:16,637 1484493 [2-thread-1] INFO loci.formats.FormatHandler - Populating OME metadata 2011-04-04 11:25:16,637 1484493 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:25:16,638 1484494 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:25:16,638 1484494 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:25:16,638 1484494 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:25:16,638 1484494 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:25:16,638 1484494 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:25:16,639 1484495 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:25:16,639 1484495 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:25:16,639 1484495 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:25:16,639 1484495 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:25:16,639 1484495 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:25:16,639 1484495 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:25:16,641 1484497 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:25:16,645 1484501 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:25:16,649 1484505 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:25:16,652 1484508 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:25:16,656 1484512 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:25:16,660 1484516 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:25:16,660 1484516 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:25:16,660 1484516 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:25:16,660 1484516 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:25:16,660 1484516 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:25:16,660 1484516 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:25:16,660 1484516 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:25:16,661 1484517 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:25:16,661 1484517 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:25:16,661 1484517 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:25:16,661 1484517 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:25:16,663 1484519 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:25:16,664 1484520 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:25:16,665 1484521 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 21_H8_1_green.tif 2011-04-04 11:25:16,666 1484522 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:25:16,679 1484535 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:25:16,680 1484536 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:25:16,680 1484536 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:25:16,681 1484537 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:25:16,681 1484537 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:25:16,682 1484538 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 21_H8_1_green.tif 2011-04-04 11:25:16,682 1484538 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:25:16,682 1484538 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:25:16,683 1484539 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:25:16,683 1484539 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:25:16,684 1484540 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:25:16,685 1484541 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:25:16,685 1484541 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:25:16,686 1484542 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:25:16,686 1484542 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@de8fd6,Image:0 2011-04-04 11:25:16,687 1484543 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@6de78a,omero.model.OriginalFile:0 2011-04-04 11:25:16,687 1484543 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@8bda08,Pixels:0 2011-04-04 11:25:16,688 1484544 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@142f820,Channel:0:0 2011-04-04 11:25:16,688 1484544 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@2c1e2e,omero.model.Channel:0:1 2011-04-04 11:25:16,689 1484545 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@1b9555,omero.model.Channel:0:2 2011-04-04 11:25:16,689 1484545 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@199eb6c,omero.model.FileAnnotation:0:0 2011-04-04 11:25:16,690 1484546 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@a8d45,omero.model.LogicalChannel:0:0 2011-04-04 11:25:16,690 1484546 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@14115fb,omero.model.LogicalChannel:0:1 2011-04-04 11:25:16,691 1484547 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@c249c5,omero.model.LogicalChannel:0:2 2011-04-04 11:25:16,691 1484547 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:25:16,692 1484548 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:25:16,692 1484548 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:751 2011-04-04 11:25:16,693 1484549 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:25:16,693 1484549 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:25:16,693 1484549 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:25:16,746 1484602 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7883 2011-04-04 11:25:16,749 1484605 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:25:16,756 1484612 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:25:17,328 1485184 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:25:17,814 1485670 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:25:18,260 1486116 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:25:18,261 1486117 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:25:18,710 1486566 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:25:18,711 1486567 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:25:18,923 1486779 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:25:18,924 1486780 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:25:18,934 1486790 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:25:30,605 1498461 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:25:30,605 1498461 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 21_H8_1_red.tif 2011-04-04 11:25:30,809 1498665 [2-thread-1] DEBUG loci.common.xml.XMLTools - Content is not allowed in prolog. 2011-04-04 11:25:30,820 1498676 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffDelegateReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\21_H8_1_red.tif) 2011-04-04 11:25:30,820 1498676 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:25:30,829 1498685 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\21_H8_1_red.tif) 2011-04-04 11:25:30,829 1498685 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:25:30,836 1498692 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:25:30,836 1498692 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:25:30,836 1498692 [2-thread-1] INFO loci.formats.FormatHandler - Checking comment style 2011-04-04 11:25:30,849 1498705 [2-thread-1] INFO loci.formats.FormatHandler - Populating OME metadata 2011-04-04 11:25:30,850 1498706 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:25:30,852 1498708 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:25:30,852 1498708 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:25:30,852 1498708 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:25:30,852 1498708 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:25:30,852 1498708 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:25:30,852 1498708 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:25:30,852 1498708 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:25:30,853 1498709 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:25:30,853 1498709 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:25:30,853 1498709 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:25:30,853 1498709 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:25:30,855 1498711 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:25:30,864 1498720 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:25:30,866 1498722 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:25:30,870 1498726 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:25:30,878 1498734 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:25:30,879 1498735 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:25:30,879 1498735 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:25:30,879 1498735 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:25:30,879 1498735 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:25:30,879 1498735 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:25:30,880 1498736 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:25:30,880 1498736 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:25:30,880 1498736 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:25:30,880 1498736 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:25:30,880 1498736 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:25:30,880 1498736 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:25:30,883 1498739 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:25:30,888 1498744 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:25:30,893 1498749 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 21_H8_1_red.tif 2011-04-04 11:25:30,894 1498750 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:25:30,900 1498756 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:25:30,901 1498757 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:25:30,901 1498757 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:25:30,902 1498758 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:25:30,902 1498758 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:25:30,902 1498758 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 21_H8_1_red.tif 2011-04-04 11:25:30,903 1498759 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:25:30,903 1498759 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:25:30,904 1498760 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:25:30,909 1498765 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:25:30,909 1498765 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:25:30,910 1498766 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:25:30,910 1498766 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:25:30,911 1498767 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:25:30,911 1498767 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@2eb8e3,Image:0 2011-04-04 11:25:30,912 1498768 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@12dec59,omero.model.OriginalFile:0 2011-04-04 11:25:30,912 1498768 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@2ccf18,Pixels:0 2011-04-04 11:25:30,913 1498769 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@803a13,Channel:0:0 2011-04-04 11:25:30,913 1498769 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@8d4b54,omero.model.Channel:0:1 2011-04-04 11:25:30,913 1498769 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@caa572,omero.model.Channel:0:2 2011-04-04 11:25:30,914 1498770 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@b59fd9,omero.model.FileAnnotation:0:0 2011-04-04 11:25:30,914 1498770 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@a2bf0f,omero.model.LogicalChannel:0:0 2011-04-04 11:25:30,915 1498771 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@1cd21c7,omero.model.LogicalChannel:0:1 2011-04-04 11:25:30,915 1498771 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@1d30b80,omero.model.LogicalChannel:0:2 2011-04-04 11:25:30,916 1498772 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:25:30,916 1498772 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:25:30,917 1498773 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:751 2011-04-04 11:25:30,917 1498773 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:25:30,918 1498774 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:25:30,918 1498774 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:25:30,984 1498840 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7884 2011-04-04 11:25:30,985 1498841 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:25:30,991 1498847 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:25:31,560 1499416 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:25:32,055 1499911 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:25:32,507 1500363 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:25:32,508 1500364 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:25:32,943 1500799 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:25:32,944 1500800 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:25:33,152 1501008 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:25:33,153 1501009 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:25:33,163 1501019 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:25:44,579 1512435 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:25:44,682 1512538 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:25:44,683 1512539 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 21_H8_1_yellow.tif 2011-04-04 11:25:44,911 1512767 [2-thread-1] DEBUG loci.common.xml.XMLTools - Content is not allowed in prolog. 2011-04-04 11:25:44,921 1512777 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffDelegateReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\21_H8_1_yellow.tif) 2011-04-04 11:25:44,921 1512777 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:25:44,926 1512782 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\21_H8_1_yellow.tif) 2011-04-04 11:25:44,926 1512782 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:25:44,932 1512788 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:25:44,933 1512789 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:25:44,933 1512789 [2-thread-1] INFO loci.formats.FormatHandler - Checking comment style 2011-04-04 11:25:44,945 1512801 [2-thread-1] INFO loci.formats.FormatHandler - Populating OME metadata 2011-04-04 11:25:44,946 1512802 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:25:44,947 1512803 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:25:44,947 1512803 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:25:44,947 1512803 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:25:44,947 1512803 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:25:44,947 1512803 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:25:44,948 1512804 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:25:44,948 1512804 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:25:44,948 1512804 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:25:44,948 1512804 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:25:44,948 1512804 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:25:44,948 1512804 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:25:44,950 1512806 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:25:44,954 1512810 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:25:44,959 1512815 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:25:44,962 1512818 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:25:44,965 1512821 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:25:44,969 1512825 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:25:44,969 1512825 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:25:44,969 1512825 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:25:44,970 1512826 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:25:44,970 1512826 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:25:44,970 1512826 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:25:44,970 1512826 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:25:44,970 1512826 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:25:44,970 1512826 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:25:44,970 1512826 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:25:44,970 1512826 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:25:44,973 1512829 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:25:44,974 1512830 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:25:44,978 1512834 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 21_H8_1_yellow.tif 2011-04-04 11:25:44,982 1512838 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:25:44,987 1512843 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:25:44,988 1512844 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:25:44,989 1512845 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:25:44,989 1512845 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:25:44,989 1512845 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:25:44,990 1512846 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 21_H8_1_yellow.tif 2011-04-04 11:25:44,990 1512846 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:25:44,990 1512846 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:25:44,995 1512851 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:25:44,996 1512852 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:25:44,996 1512852 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:25:44,997 1512853 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:25:44,997 1512853 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:25:44,998 1512854 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:25:44,998 1512854 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@97cd75,Image:0 2011-04-04 11:25:44,999 1512855 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@104f4c8,omero.model.OriginalFile:0 2011-04-04 11:25:44,999 1512855 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@3aeae4,Pixels:0 2011-04-04 11:25:44,999 1512855 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@132f43d,Channel:0:0 2011-04-04 11:25:45,000 1512856 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@1811ce0,omero.model.Channel:0:1 2011-04-04 11:25:45,000 1512856 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@95c737,omero.model.Channel:0:2 2011-04-04 11:25:45,001 1512857 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@18e6e25,omero.model.FileAnnotation:0:0 2011-04-04 11:25:45,001 1512857 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1c02a77,omero.model.LogicalChannel:0:0 2011-04-04 11:25:45,002 1512858 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@564448,omero.model.LogicalChannel:0:1 2011-04-04 11:25:45,002 1512858 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@13979cc,omero.model.LogicalChannel:0:2 2011-04-04 11:25:45,002 1512858 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:25:45,003 1512859 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:25:45,003 1512859 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:751 2011-04-04 11:25:45,004 1512860 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:25:45,004 1512860 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:25:45,004 1512860 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:25:45,053 1512909 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7885 2011-04-04 11:25:45,054 1512910 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:25:45,061 1512917 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:25:45,627 1513483 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:25:46,118 1513974 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:25:46,569 1514425 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:25:46,570 1514426 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:25:47,022 1514878 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:25:47,023 1514879 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:25:47,229 1515085 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:25:47,230 1515086 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:25:47,237 1515093 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:25:58,641 1526497 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:25:58,642 1526498 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 5_E4_1_blue.tif 2011-04-04 11:25:58,891 1526747 [2-thread-1] DEBUG loci.common.xml.XMLTools - Content is not allowed in prolog. 2011-04-04 11:25:58,901 1526757 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffDelegateReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\5_E4_1_blue.tif) 2011-04-04 11:25:58,901 1526757 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:25:58,906 1526762 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\5_E4_1_blue.tif) 2011-04-04 11:25:58,906 1526762 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:25:58,912 1526768 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:25:58,913 1526769 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:25:58,913 1526769 [2-thread-1] INFO loci.formats.FormatHandler - Checking comment style 2011-04-04 11:25:58,927 1526783 [2-thread-1] INFO loci.formats.FormatHandler - Populating OME metadata 2011-04-04 11:25:58,927 1526783 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:25:58,928 1526784 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:25:58,928 1526784 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:25:58,928 1526784 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:25:58,928 1526784 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:25:58,928 1526784 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:25:58,929 1526785 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:25:58,929 1526785 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:25:58,929 1526785 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:25:58,929 1526785 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:25:58,929 1526785 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:25:58,929 1526785 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:25:58,932 1526788 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:25:58,935 1526791 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:25:58,944 1526800 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:25:58,945 1526801 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:25:58,949 1526805 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:25:58,952 1526808 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:25:58,952 1526808 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:25:58,952 1526808 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:25:58,953 1526809 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:25:58,953 1526809 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:25:58,953 1526809 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:25:58,953 1526809 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:25:58,953 1526809 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:25:58,953 1526809 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:25:58,953 1526809 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:25:58,953 1526809 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:25:58,956 1526812 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:25:58,960 1526816 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:25:58,964 1526820 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 5_E4_1_blue.tif 2011-04-04 11:25:58,968 1526824 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:25:58,974 1526830 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:25:58,975 1526831 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:25:58,975 1526831 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:25:58,976 1526832 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:25:58,976 1526832 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:25:58,977 1526833 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 5_E4_1_blue.tif 2011-04-04 11:25:58,978 1526834 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:25:58,978 1526834 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:25:58,979 1526835 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:25:58,980 1526836 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:25:58,980 1526836 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:25:58,981 1526837 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:25:58,982 1526838 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:25:58,982 1526838 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:25:58,983 1526839 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@1cfcba6,Image:0 2011-04-04 11:25:58,983 1526839 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@12de12,omero.model.OriginalFile:0 2011-04-04 11:25:58,984 1526840 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@1b54d4e,Pixels:0 2011-04-04 11:25:58,984 1526840 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@132a704,Channel:0:0 2011-04-04 11:25:58,984 1526840 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@13ba11c,omero.model.Channel:0:1 2011-04-04 11:25:58,985 1526841 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@9f3eba,omero.model.Channel:0:2 2011-04-04 11:25:58,985 1526841 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@17ac7ba,omero.model.FileAnnotation:0:0 2011-04-04 11:25:58,986 1526842 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@10a485c,omero.model.LogicalChannel:0:0 2011-04-04 11:25:58,986 1526842 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@1f49ec4,omero.model.LogicalChannel:0:1 2011-04-04 11:25:58,990 1526846 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@1e19d13,omero.model.LogicalChannel:0:2 2011-04-04 11:25:58,991 1526847 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:25:58,991 1526847 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:25:58,992 1526848 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:751 2011-04-04 11:25:58,992 1526848 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:25:58,993 1526849 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:25:58,993 1526849 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:25:59,044 1526900 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7886 2011-04-04 11:25:59,049 1526905 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:25:59,056 1526912 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:25:59,628 1527484 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:26:00,094 1527950 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:26:00,548 1528404 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:26:00,549 1528405 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:26:01,005 1528861 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:26:01,006 1528862 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:26:01,229 1529085 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:26:01,230 1529086 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:26:01,240 1529096 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:26:12,858 1540714 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:26:12,860 1540716 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 5_E4_1_green.tif 2011-04-04 11:26:13,152 1541008 [2-thread-1] DEBUG loci.common.xml.XMLTools - Content is not allowed in prolog. 2011-04-04 11:26:13,164 1541020 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffDelegateReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\5_E4_1_green.tif) 2011-04-04 11:26:13,164 1541020 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:26:13,169 1541025 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\5_E4_1_green.tif) 2011-04-04 11:26:13,169 1541025 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:26:13,176 1541032 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:26:13,176 1541032 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:26:13,177 1541033 [2-thread-1] INFO loci.formats.FormatHandler - Checking comment style 2011-04-04 11:26:13,190 1541046 [2-thread-1] INFO loci.formats.FormatHandler - Populating OME metadata 2011-04-04 11:26:13,190 1541046 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:26:13,192 1541048 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:26:13,192 1541048 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:26:13,192 1541048 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:26:13,192 1541048 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:26:13,192 1541048 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:26:13,193 1541049 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:26:13,193 1541049 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:26:13,193 1541049 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:26:13,193 1541049 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:26:13,193 1541049 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:26:13,199 1541055 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:26:13,201 1541057 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:26:13,202 1541058 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:26:13,204 1541060 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:26:13,205 1541061 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:26:13,209 1541065 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:26:13,213 1541069 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:26:13,213 1541069 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:26:13,213 1541069 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:26:13,213 1541069 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:26:13,213 1541069 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:26:13,214 1541070 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:26:13,214 1541070 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:26:13,214 1541070 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:26:13,214 1541070 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:26:13,214 1541070 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:26:13,214 1541070 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:26:13,217 1541073 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:26:13,221 1541077 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:26:13,224 1541080 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 5_E4_1_green.tif 2011-04-04 11:26:13,229 1541085 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:26:13,236 1541092 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:26:13,237 1541093 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:26:13,237 1541093 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:26:13,238 1541094 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:26:13,238 1541094 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:26:13,238 1541094 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 5_E4_1_green.tif 2011-04-04 11:26:13,249 1541105 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:26:13,249 1541105 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:26:13,250 1541106 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:26:13,251 1541107 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:26:13,252 1541108 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:26:13,252 1541108 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:26:13,253 1541109 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:26:13,253 1541109 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:26:13,254 1541110 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@189ee45,Image:0 2011-04-04 11:26:13,254 1541110 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@3d0d64,omero.model.OriginalFile:0 2011-04-04 11:26:13,255 1541111 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@8d6877,Pixels:0 2011-04-04 11:26:13,255 1541111 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@1cf68e9,Channel:0:0 2011-04-04 11:26:13,256 1541112 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@18269b6,omero.model.Channel:0:1 2011-04-04 11:26:13,256 1541112 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@1bc475,omero.model.Channel:0:2 2011-04-04 11:26:13,257 1541113 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@ada9e9,omero.model.FileAnnotation:0:0 2011-04-04 11:26:13,257 1541113 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@136b688,omero.model.LogicalChannel:0:0 2011-04-04 11:26:13,258 1541114 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@c2e890,omero.model.LogicalChannel:0:1 2011-04-04 11:26:13,258 1541114 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@1ea2543,omero.model.LogicalChannel:0:2 2011-04-04 11:26:13,259 1541115 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:26:13,259 1541115 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:26:13,260 1541116 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:751 2011-04-04 11:26:13,260 1541116 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:26:13,261 1541117 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:26:13,261 1541117 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:26:13,311 1541167 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7887 2011-04-04 11:26:13,313 1541169 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:26:13,319 1541175 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:26:13,892 1541748 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:26:14,415 1542271 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:26:14,874 1542730 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:26:14,874 1542730 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:26:15,349 1543205 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:26:15,365 1543221 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:26:15,582 1543438 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:26:15,590 1543446 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:26:15,601 1543457 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:26:27,148 1555004 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:26:27,149 1555005 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 5_E4_1_red.tif 2011-04-04 11:26:27,430 1555286 [2-thread-1] DEBUG loci.common.xml.XMLTools - Content is not allowed in prolog. 2011-04-04 11:26:27,443 1555299 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffDelegateReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\5_E4_1_red.tif) 2011-04-04 11:26:27,443 1555299 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:26:27,448 1555304 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\5_E4_1_red.tif) 2011-04-04 11:26:27,448 1555304 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:26:27,455 1555311 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:26:27,456 1555312 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:26:27,456 1555312 [2-thread-1] INFO loci.formats.FormatHandler - Checking comment style 2011-04-04 11:26:27,472 1555328 [2-thread-1] INFO loci.formats.FormatHandler - Populating OME metadata 2011-04-04 11:26:27,472 1555328 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:26:27,473 1555329 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:26:27,473 1555329 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:26:27,473 1555329 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:26:27,473 1555329 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:26:27,473 1555329 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:26:27,474 1555330 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:26:27,474 1555330 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:26:27,474 1555330 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:26:27,474 1555330 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:26:27,474 1555330 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:26:27,474 1555330 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:26:27,477 1555333 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:26:27,481 1555337 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:26:27,486 1555342 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:26:27,489 1555345 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:26:27,494 1555350 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:26:27,498 1555354 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:26:27,498 1555354 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:26:27,498 1555354 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:26:27,498 1555354 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:26:27,498 1555354 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:26:27,499 1555355 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:26:27,499 1555355 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:26:27,499 1555355 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:26:27,499 1555355 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:26:27,499 1555355 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:26:27,499 1555355 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:26:27,502 1555358 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:26:27,506 1555362 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:26:27,510 1555366 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 5_E4_1_red.tif 2011-04-04 11:26:27,520 1555376 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:26:27,522 1555378 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:26:27,546 1555402 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:26:27,546 1555402 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:26:27,547 1555403 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:26:27,547 1555403 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:26:27,548 1555404 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 5_E4_1_red.tif 2011-04-04 11:26:27,549 1555405 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:26:27,549 1555405 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:26:27,550 1555406 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:26:27,551 1555407 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:26:27,553 1555409 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:26:27,554 1555410 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:26:27,554 1555410 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:26:27,555 1555411 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:26:27,555 1555411 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@1051da4,Image:0 2011-04-04 11:26:27,556 1555412 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@b4376e,omero.model.OriginalFile:0 2011-04-04 11:26:27,556 1555412 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@d67e21,Pixels:0 2011-04-04 11:26:27,557 1555413 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@31a0d1,Channel:0:0 2011-04-04 11:26:27,557 1555413 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@1ad1d2c,omero.model.Channel:0:1 2011-04-04 11:26:27,558 1555414 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@93acc2,omero.model.Channel:0:2 2011-04-04 11:26:27,558 1555414 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@eee839,omero.model.FileAnnotation:0:0 2011-04-04 11:26:27,559 1555415 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@725296,omero.model.LogicalChannel:0:0 2011-04-04 11:26:27,559 1555415 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@acca00,omero.model.LogicalChannel:0:1 2011-04-04 11:26:27,588 1555444 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@1d5a10c,omero.model.LogicalChannel:0:2 2011-04-04 11:26:27,590 1555446 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:26:27,590 1555446 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:26:27,591 1555447 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:751 2011-04-04 11:26:27,592 1555448 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:26:27,594 1555450 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:26:27,594 1555450 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:26:27,644 1555500 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7888 2011-04-04 11:26:27,645 1555501 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:26:27,655 1555511 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:26:28,262 1556118 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:26:28,741 1556597 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:26:29,231 1557087 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:26:29,231 1557087 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:26:29,678 1557534 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:26:29,680 1557536 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:26:29,913 1557769 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:26:29,927 1557783 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:26:29,933 1557789 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:26:41,567 1569423 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:26:41,568 1569424 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 5_E4_1_yellow.tif 2011-04-04 11:26:41,799 1569655 [2-thread-1] DEBUG loci.common.xml.XMLTools - Content is not allowed in prolog. 2011-04-04 11:26:41,844 1569700 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffDelegateReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\5_E4_1_yellow.tif) 2011-04-04 11:26:41,845 1569701 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:26:41,850 1569706 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\5_E4_1_yellow.tif) 2011-04-04 11:26:41,850 1569706 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:26:41,856 1569712 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:26:41,856 1569712 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:26:41,857 1569713 [2-thread-1] INFO loci.formats.FormatHandler - Checking comment style 2011-04-04 11:26:41,871 1569727 [2-thread-1] INFO loci.formats.FormatHandler - Populating OME metadata 2011-04-04 11:26:41,871 1569727 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:26:41,873 1569729 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:26:41,873 1569729 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:26:41,873 1569729 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:26:41,873 1569729 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:26:41,873 1569729 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:26:41,873 1569729 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:26:41,873 1569729 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:26:41,874 1569730 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:26:41,874 1569730 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:26:41,874 1569730 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:26:41,874 1569730 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:26:41,875 1569731 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:26:41,879 1569735 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:26:41,888 1569744 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:26:41,889 1569745 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:26:41,892 1569748 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:26:41,896 1569752 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:26:41,896 1569752 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:26:41,896 1569752 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:26:41,896 1569752 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:26:41,896 1569752 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:26:41,897 1569753 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:26:41,897 1569753 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:26:41,897 1569753 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:26:41,897 1569753 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:26:41,897 1569753 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:26:41,897 1569753 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:26:41,900 1569756 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:26:41,904 1569760 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:26:41,908 1569764 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 5_E4_1_yellow.tif 2011-04-04 11:26:41,912 1569768 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:26:41,917 1569773 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:26:41,918 1569774 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:26:41,919 1569775 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:26:41,919 1569775 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:26:41,920 1569776 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:26:41,920 1569776 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 5_E4_1_yellow.tif 2011-04-04 11:26:41,921 1569777 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:26:41,921 1569777 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:26:41,925 1569781 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:26:41,926 1569782 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:26:41,927 1569783 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:26:41,927 1569783 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:26:41,928 1569784 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:26:41,928 1569784 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:26:41,929 1569785 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@1929d28,Image:0 2011-04-04 11:26:41,930 1569786 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@895110,omero.model.OriginalFile:0 2011-04-04 11:26:41,930 1569786 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@57256f,Pixels:0 2011-04-04 11:26:41,931 1569787 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@171a9b,Channel:0:0 2011-04-04 11:26:41,931 1569787 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@333bdb,omero.model.Channel:0:1 2011-04-04 11:26:41,932 1569788 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@84c71b,omero.model.Channel:0:2 2011-04-04 11:26:41,932 1569788 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@1be9f07,omero.model.FileAnnotation:0:0 2011-04-04 11:26:41,933 1569789 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@df9411,omero.model.LogicalChannel:0:0 2011-04-04 11:26:41,934 1569790 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@59a6b5,omero.model.LogicalChannel:0:1 2011-04-04 11:26:41,934 1569790 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@aa21e,omero.model.LogicalChannel:0:2 2011-04-04 11:26:41,934 1569790 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:26:41,935 1569791 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:26:41,935 1569791 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:751 2011-04-04 11:26:41,936 1569792 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:26:41,936 1569792 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:26:41,936 1569792 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:26:41,986 1569842 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7889 2011-04-04 11:26:41,994 1569850 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:26:42,002 1569858 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:26:42,599 1570455 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:26:43,077 1570933 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:26:43,548 1571404 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:26:43,549 1571405 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:26:43,985 1571841 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:26:43,986 1571842 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:26:44,179 1572035 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:26:44,179 1572035 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:26:44,188 1572044 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:26:44,578 1572434 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:26:55,881 1583737 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:26:55,883 1583739 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 5_E4_2_blue.tif 2011-04-04 11:26:56,170 1584026 [2-thread-1] DEBUG loci.common.xml.XMLTools - Content is not allowed in prolog. 2011-04-04 11:26:56,182 1584038 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffDelegateReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\5_E4_2_blue.tif) 2011-04-04 11:26:56,182 1584038 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:26:56,191 1584047 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\5_E4_2_blue.tif) 2011-04-04 11:26:56,191 1584047 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:26:56,197 1584053 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:26:56,197 1584053 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:26:56,197 1584053 [2-thread-1] INFO loci.formats.FormatHandler - Checking comment style 2011-04-04 11:26:56,212 1584068 [2-thread-1] INFO loci.formats.FormatHandler - Populating OME metadata 2011-04-04 11:26:56,212 1584068 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:26:56,214 1584070 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:26:56,214 1584070 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:26:56,214 1584070 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:26:56,214 1584070 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:26:56,214 1584070 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:26:56,214 1584070 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:26:56,215 1584071 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:26:56,215 1584071 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:26:56,215 1584071 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:26:56,215 1584071 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:26:56,215 1584071 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:26:56,217 1584073 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:26:56,222 1584078 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:26:56,228 1584084 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:26:56,236 1584092 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:26:56,237 1584093 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:26:56,246 1584102 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:26:56,246 1584102 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:26:56,247 1584103 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:26:56,247 1584103 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:26:56,247 1584103 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:26:56,247 1584103 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:26:56,247 1584103 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:26:56,248 1584104 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:26:56,248 1584104 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:26:56,248 1584104 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:26:56,248 1584104 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:26:56,253 1584109 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:26:56,257 1584113 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:26:56,261 1584117 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 5_E4_2_blue.tif 2011-04-04 11:26:56,266 1584122 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:26:56,272 1584128 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:26:56,273 1584129 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:26:56,273 1584129 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:26:56,274 1584130 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:26:56,274 1584130 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:26:56,274 1584130 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 5_E4_2_blue.tif 2011-04-04 11:26:56,275 1584131 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:26:56,275 1584131 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:26:56,280 1584136 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:26:56,281 1584137 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:26:56,281 1584137 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:26:56,282 1584138 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:26:56,283 1584139 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:26:56,283 1584139 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:26:56,283 1584139 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@2d490b,Image:0 2011-04-04 11:26:56,284 1584140 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@14462b,omero.model.OriginalFile:0 2011-04-04 11:26:56,284 1584140 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@1695ed7,Pixels:0 2011-04-04 11:26:56,285 1584141 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@a5eac1,Channel:0:0 2011-04-04 11:26:56,285 1584141 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@fb224,omero.model.Channel:0:1 2011-04-04 11:26:56,286 1584142 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@2ebbbd,omero.model.Channel:0:2 2011-04-04 11:26:56,286 1584142 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@1984b4a,omero.model.FileAnnotation:0:0 2011-04-04 11:26:56,287 1584143 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1b4e829,omero.model.LogicalChannel:0:0 2011-04-04 11:26:56,287 1584143 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@13e58cd,omero.model.LogicalChannel:0:1 2011-04-04 11:26:56,288 1584144 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@2ef2d7,omero.model.LogicalChannel:0:2 2011-04-04 11:26:56,288 1584144 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:26:56,288 1584144 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:26:56,289 1584145 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:751 2011-04-04 11:26:56,290 1584146 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:26:56,290 1584146 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:26:56,290 1584146 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:26:56,347 1584203 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7890 2011-04-04 11:26:56,349 1584205 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:26:56,355 1584211 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:26:56,933 1584789 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:26:57,415 1585271 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:26:57,899 1585755 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:26:57,900 1585756 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:26:58,382 1586238 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:26:58,383 1586239 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:26:58,596 1586452 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:26:58,597 1586453 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:26:58,607 1586463 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:27:10,142 1597998 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:27:10,143 1597999 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 5_E4_2_green.tif 2011-04-04 11:27:10,363 1598219 [2-thread-1] DEBUG loci.common.xml.XMLTools - Content is not allowed in prolog. 2011-04-04 11:27:10,404 1598260 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffDelegateReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\5_E4_2_green.tif) 2011-04-04 11:27:10,404 1598260 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:27:10,409 1598265 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\5_E4_2_green.tif) 2011-04-04 11:27:10,409 1598265 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:27:10,416 1598272 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:27:10,416 1598272 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:27:10,417 1598273 [2-thread-1] INFO loci.formats.FormatHandler - Checking comment style 2011-04-04 11:27:10,435 1598291 [2-thread-1] INFO loci.formats.FormatHandler - Populating OME metadata 2011-04-04 11:27:10,435 1598291 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:27:10,442 1598298 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:27:10,442 1598298 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:27:10,442 1598298 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:27:10,443 1598299 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:27:10,443 1598299 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:27:10,443 1598299 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:27:10,443 1598299 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:27:10,443 1598299 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:27:10,444 1598300 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:27:10,444 1598300 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:27:10,444 1598300 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:27:10,448 1598304 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:27:10,453 1598309 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:27:10,457 1598313 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:27:10,461 1598317 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:27:10,464 1598320 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:27:10,468 1598324 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:27:10,468 1598324 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:27:10,468 1598324 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:27:10,468 1598324 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:27:10,468 1598324 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:27:10,469 1598325 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:27:10,469 1598325 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:27:10,469 1598325 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:27:10,470 1598326 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:27:10,470 1598326 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:27:10,470 1598326 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:27:10,472 1598328 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:27:10,480 1598336 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:27:10,481 1598337 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 5_E4_2_green.tif 2011-04-04 11:27:10,485 1598341 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:27:10,491 1598347 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:27:10,492 1598348 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:27:10,492 1598348 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:27:10,493 1598349 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:27:10,493 1598349 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:27:10,493 1598349 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 5_E4_2_green.tif 2011-04-04 11:27:10,494 1598350 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:27:10,494 1598350 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:27:10,495 1598351 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:27:10,512 1598368 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:27:10,513 1598369 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:27:10,514 1598370 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:27:10,514 1598370 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:27:10,514 1598370 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:27:10,515 1598371 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@1ffaab5,Image:0 2011-04-04 11:27:10,515 1598371 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@315d04,omero.model.OriginalFile:0 2011-04-04 11:27:10,516 1598372 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@1c0fef4,Pixels:0 2011-04-04 11:27:10,517 1598373 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@39a391,Channel:0:0 2011-04-04 11:27:10,517 1598373 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@14baafe,omero.model.Channel:0:1 2011-04-04 11:27:10,518 1598374 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@141fcda,omero.model.Channel:0:2 2011-04-04 11:27:10,518 1598374 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@1a5cfae,omero.model.FileAnnotation:0:0 2011-04-04 11:27:10,518 1598374 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@13ceeb6,omero.model.LogicalChannel:0:0 2011-04-04 11:27:10,520 1598376 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@1a477bf,omero.model.LogicalChannel:0:1 2011-04-04 11:27:10,520 1598376 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@862c65,omero.model.LogicalChannel:0:2 2011-04-04 11:27:10,520 1598376 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:27:10,521 1598377 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:27:10,522 1598378 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:751 2011-04-04 11:27:10,522 1598378 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:27:10,523 1598379 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:27:10,523 1598379 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:27:10,575 1598431 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7891 2011-04-04 11:27:10,576 1598432 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:27:10,586 1598442 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:27:11,141 1598997 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:27:11,633 1599489 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:27:12,093 1599949 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:27:12,094 1599950 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:27:12,544 1600400 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:27:12,545 1600401 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:27:12,739 1600595 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:27:12,740 1600596 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:27:12,747 1600603 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:27:24,563 1612419 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:27:24,564 1612420 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 5_E4_2_red.tif 2011-04-04 11:27:24,804 1612660 [2-thread-1] DEBUG loci.common.xml.XMLTools - Content is not allowed in prolog. 2011-04-04 11:27:24,815 1612671 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffDelegateReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\5_E4_2_red.tif) 2011-04-04 11:27:24,815 1612671 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:27:24,824 1612680 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\5_E4_2_red.tif) 2011-04-04 11:27:24,824 1612680 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:27:24,830 1612686 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:27:24,831 1612687 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:27:24,831 1612687 [2-thread-1] INFO loci.formats.FormatHandler - Checking comment style 2011-04-04 11:27:24,845 1612701 [2-thread-1] INFO loci.formats.FormatHandler - Populating OME metadata 2011-04-04 11:27:24,845 1612701 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:27:24,846 1612702 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:27:24,846 1612702 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:27:24,846 1612702 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:27:24,846 1612702 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:27:24,846 1612702 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:27:24,847 1612703 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:27:24,847 1612703 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:27:24,847 1612703 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:27:24,847 1612703 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:27:24,847 1612703 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:27:24,847 1612703 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:27:24,850 1612706 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:27:24,854 1612710 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:27:24,860 1612716 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:27:24,863 1612719 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:27:24,867 1612723 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:27:24,872 1612728 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:27:24,872 1612728 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:27:24,873 1612729 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:27:24,873 1612729 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:27:24,873 1612729 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:27:24,873 1612729 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:27:24,873 1612729 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:27:24,873 1612729 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:27:24,873 1612729 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:27:24,873 1612729 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:27:24,874 1612730 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:27:24,876 1612732 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:27:24,880 1612736 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:27:24,885 1612741 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 5_E4_2_red.tif 2011-04-04 11:27:24,890 1612746 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:27:24,896 1612752 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:27:24,897 1612753 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:27:24,897 1612753 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:27:24,898 1612754 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:27:24,898 1612754 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:27:24,898 1612754 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 5_E4_2_red.tif 2011-04-04 11:27:24,899 1612755 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:27:24,899 1612755 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:27:24,900 1612756 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:27:24,901 1612757 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:27:24,905 1612761 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:27:24,906 1612762 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:27:24,906 1612762 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:27:24,907 1612763 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:27:24,907 1612763 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@9f8247,Image:0 2011-04-04 11:27:24,908 1612764 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@128e644,omero.model.OriginalFile:0 2011-04-04 11:27:24,909 1612765 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@b76be4,Pixels:0 2011-04-04 11:27:24,909 1612765 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@11b309,Channel:0:0 2011-04-04 11:27:24,909 1612765 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@9957eb,omero.model.Channel:0:1 2011-04-04 11:27:24,910 1612766 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@11cb6f7,omero.model.Channel:0:2 2011-04-04 11:27:24,910 1612766 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@1942912,omero.model.FileAnnotation:0:0 2011-04-04 11:27:24,911 1612767 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@17504fb,omero.model.LogicalChannel:0:0 2011-04-04 11:27:24,911 1612767 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@9794d,omero.model.LogicalChannel:0:1 2011-04-04 11:27:24,912 1612768 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@1815614,omero.model.LogicalChannel:0:2 2011-04-04 11:27:24,912 1612768 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:27:24,912 1612768 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:27:24,913 1612769 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:751 2011-04-04 11:27:24,913 1612769 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:27:24,914 1612770 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:27:24,914 1612770 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:27:24,964 1612820 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7892 2011-04-04 11:27:24,967 1612823 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:27:24,975 1612831 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:27:25,559 1613415 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:27:26,043 1613899 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:27:26,492 1614348 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:27:26,493 1614349 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:27:26,955 1614811 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:27:26,956 1614812 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:27:27,189 1615045 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:27:27,190 1615046 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:27:27,200 1615056 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:27:38,747 1626603 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:27:38,748 1626604 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 5_E4_2_yellow.tif 2011-04-04 11:27:38,961 1626817 [2-thread-1] DEBUG loci.common.xml.XMLTools - Content is not allowed in prolog. 2011-04-04 11:27:39,003 1626859 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffDelegateReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\5_E4_2_yellow.tif) 2011-04-04 11:27:39,003 1626859 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:27:39,008 1626864 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\5_E4_2_yellow.tif) 2011-04-04 11:27:39,008 1626864 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:27:39,015 1626871 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:27:39,015 1626871 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:27:39,015 1626871 [2-thread-1] INFO loci.formats.FormatHandler - Checking comment style 2011-04-04 11:27:39,029 1626885 [2-thread-1] INFO loci.formats.FormatHandler - Populating OME metadata 2011-04-04 11:27:39,029 1626885 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:27:39,031 1626887 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:27:39,031 1626887 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:27:39,032 1626888 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:27:39,032 1626888 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:27:39,032 1626888 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:27:39,032 1626888 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:27:39,032 1626888 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:27:39,032 1626888 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:27:39,032 1626888 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:27:39,032 1626888 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:27:39,033 1626889 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:27:39,033 1626889 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:27:39,040 1626896 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:27:39,042 1626898 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:27:39,045 1626901 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:27:39,049 1626905 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:27:39,053 1626909 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:27:39,053 1626909 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:27:39,053 1626909 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:27:39,053 1626909 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:27:39,053 1626909 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:27:39,054 1626910 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:27:39,054 1626910 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:27:39,054 1626910 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:27:39,054 1626910 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:27:39,054 1626910 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:27:39,054 1626910 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:27:39,056 1626912 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:27:39,060 1626916 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:27:39,064 1626920 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 5_E4_2_yellow.tif 2011-04-04 11:27:39,069 1626925 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:27:39,073 1626929 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:27:39,075 1626931 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:27:39,076 1626932 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:27:39,076 1626932 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:27:39,077 1626933 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:27:39,077 1626933 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 5_E4_2_yellow.tif 2011-04-04 11:27:39,077 1626933 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:27:39,078 1626934 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:27:39,079 1626935 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:27:39,079 1626935 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:27:39,080 1626936 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:27:39,084 1626940 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:27:39,084 1626940 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:27:39,085 1626941 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:27:39,086 1626942 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@191535f,Image:0 2011-04-04 11:27:39,086 1626942 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@151660a,omero.model.OriginalFile:0 2011-04-04 11:27:39,086 1626942 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@10f29f,Pixels:0 2011-04-04 11:27:39,087 1626943 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@16bf0e6,Channel:0:0 2011-04-04 11:27:39,087 1626943 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@f6805b,omero.model.Channel:0:1 2011-04-04 11:27:39,088 1626944 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@db5e9c,omero.model.Channel:0:2 2011-04-04 11:27:39,088 1626944 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@15c48f7,omero.model.FileAnnotation:0:0 2011-04-04 11:27:39,089 1626945 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@10100f,omero.model.LogicalChannel:0:0 2011-04-04 11:27:39,089 1626945 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@14009d2,omero.model.LogicalChannel:0:1 2011-04-04 11:27:39,090 1626946 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@a3a288,omero.model.LogicalChannel:0:2 2011-04-04 11:27:39,090 1626946 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:27:39,091 1626947 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:27:39,091 1626947 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:751 2011-04-04 11:27:39,091 1626947 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:27:39,092 1626948 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:27:39,092 1626948 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:27:39,142 1626998 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7893 2011-04-04 11:27:39,146 1627002 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:27:39,152 1627008 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:27:39,759 1627615 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:27:40,208 1628064 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:27:40,662 1628518 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:27:40,663 1628519 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:27:41,098 1628954 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:27:41,100 1628956 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:27:41,322 1629178 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:27:41,323 1629179 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:27:41,334 1629190 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:27:44,577 1632433 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:27:53,141 1640997 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:27:53,142 1640998 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 78_G1_2_blue.tif 2011-04-04 11:27:53,365 1641221 [2-thread-1] DEBUG loci.common.xml.XMLTools - Content is not allowed in prolog. 2011-04-04 11:27:53,375 1641231 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffDelegateReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\78_G1_2_blue.tif) 2011-04-04 11:27:53,375 1641231 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:27:53,379 1641235 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\78_G1_2_blue.tif) 2011-04-04 11:27:53,379 1641235 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:27:53,386 1641242 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:27:53,386 1641242 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:27:53,387 1641243 [2-thread-1] INFO loci.formats.FormatHandler - Checking comment style 2011-04-04 11:27:53,401 1641257 [2-thread-1] INFO loci.formats.FormatHandler - Populating OME metadata 2011-04-04 11:27:53,401 1641257 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:27:53,402 1641258 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:27:53,402 1641258 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:27:53,402 1641258 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:27:53,402 1641258 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:27:53,402 1641258 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:27:53,403 1641259 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:27:53,403 1641259 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:27:53,403 1641259 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:27:53,403 1641259 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:27:53,403 1641259 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:27:53,403 1641259 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:27:53,406 1641262 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:27:53,411 1641267 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:27:53,417 1641273 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:27:53,421 1641277 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:27:53,425 1641281 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:27:53,430 1641286 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:27:53,430 1641286 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:27:53,430 1641286 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:27:53,430 1641286 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:27:53,430 1641286 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:27:53,431 1641287 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:27:53,431 1641287 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:27:53,431 1641287 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:27:53,431 1641287 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:27:53,432 1641288 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:27:53,432 1641288 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:27:53,441 1641297 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:27:53,444 1641300 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:27:53,448 1641304 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 78_G1_2_blue.tif 2011-04-04 11:27:53,454 1641310 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:27:53,461 1641317 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:27:53,462 1641318 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:27:53,462 1641318 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:27:53,463 1641319 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:27:53,463 1641319 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:27:53,464 1641320 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 78_G1_2_blue.tif 2011-04-04 11:27:53,464 1641320 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:27:53,464 1641320 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:27:53,470 1641326 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:27:53,470 1641326 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:27:53,471 1641327 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:27:53,471 1641327 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:27:53,472 1641328 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:27:53,472 1641328 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:27:53,473 1641329 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@14ac3cb,Image:0 2011-04-04 11:27:53,473 1641329 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@4a4890,omero.model.OriginalFile:0 2011-04-04 11:27:53,474 1641330 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@d5b224,Pixels:0 2011-04-04 11:27:53,474 1641330 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@a1c9f2,Channel:0:0 2011-04-04 11:27:53,475 1641331 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@1560af9,omero.model.Channel:0:1 2011-04-04 11:27:53,475 1641331 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@7dcc23,omero.model.Channel:0:2 2011-04-04 11:27:53,476 1641332 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@fe7381,omero.model.FileAnnotation:0:0 2011-04-04 11:27:53,476 1641332 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1771302,omero.model.LogicalChannel:0:0 2011-04-04 11:27:53,476 1641332 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@ef96,omero.model.LogicalChannel:0:1 2011-04-04 11:27:53,477 1641333 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@628e1,omero.model.LogicalChannel:0:2 2011-04-04 11:27:53,477 1641333 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:27:53,478 1641334 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:27:53,479 1641335 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:751 2011-04-04 11:27:53,479 1641335 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:27:53,480 1641336 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:27:53,480 1641336 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:27:53,536 1641392 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7894 2011-04-04 11:27:53,536 1641392 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:27:53,547 1641403 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:27:54,128 1641984 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:27:54,576 1642432 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:27:55,048 1642904 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:27:55,049 1642905 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:27:55,512 1643368 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:27:55,513 1643369 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:27:55,716 1643572 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:27:55,717 1643573 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:27:55,725 1643581 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:28:07,285 1655141 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:28:07,292 1655148 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 78_G1_2_green.tif 2011-04-04 11:28:07,509 1655365 [2-thread-1] DEBUG loci.common.xml.XMLTools - Content is not allowed in prolog. 2011-04-04 11:28:07,551 1655407 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffDelegateReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\78_G1_2_green.tif) 2011-04-04 11:28:07,551 1655407 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:28:07,557 1655413 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\78_G1_2_green.tif) 2011-04-04 11:28:07,557 1655413 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:28:07,563 1655419 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:28:07,563 1655419 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:28:07,564 1655420 [2-thread-1] INFO loci.formats.FormatHandler - Checking comment style 2011-04-04 11:28:07,578 1655434 [2-thread-1] INFO loci.formats.FormatHandler - Populating OME metadata 2011-04-04 11:28:07,578 1655434 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:28:07,580 1655436 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:28:07,580 1655436 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:28:07,580 1655436 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:28:07,580 1655436 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:28:07,580 1655436 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:28:07,580 1655436 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:28:07,580 1655436 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:28:07,581 1655437 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:28:07,581 1655437 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:28:07,581 1655437 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:28:07,581 1655437 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:28:07,582 1655438 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:28:07,586 1655442 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:28:07,591 1655447 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:28:07,594 1655450 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:28:07,598 1655454 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:28:07,602 1655458 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:28:07,602 1655458 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:28:07,602 1655458 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:28:07,602 1655458 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:28:07,602 1655458 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:28:07,603 1655459 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:28:07,603 1655459 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:28:07,603 1655459 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:28:07,603 1655459 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:28:07,603 1655459 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:28:07,603 1655459 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:28:07,606 1655462 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:28:07,610 1655466 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:28:07,615 1655471 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 78_G1_2_green.tif 2011-04-04 11:28:07,620 1655476 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:28:07,625 1655481 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:28:07,626 1655482 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:28:07,627 1655483 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:28:07,627 1655483 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:28:07,627 1655483 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:28:07,628 1655484 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 78_G1_2_green.tif 2011-04-04 11:28:07,628 1655484 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:28:07,629 1655485 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:28:07,634 1655490 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:28:07,635 1655491 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:28:07,635 1655491 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:28:07,636 1655492 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:28:07,636 1655492 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:28:07,637 1655493 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:28:07,637 1655493 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@1007685,Image:0 2011-04-04 11:28:07,638 1655494 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@db96ac,omero.model.OriginalFile:0 2011-04-04 11:28:07,638 1655494 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@154614c,Pixels:0 2011-04-04 11:28:07,639 1655495 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@637d6,Channel:0:0 2011-04-04 11:28:07,639 1655495 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@106f08e,omero.model.Channel:0:1 2011-04-04 11:28:07,640 1655496 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@8e14b7,omero.model.Channel:0:2 2011-04-04 11:28:07,640 1655496 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@2052de,omero.model.FileAnnotation:0:0 2011-04-04 11:28:07,641 1655497 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1f3ed7f,omero.model.LogicalChannel:0:0 2011-04-04 11:28:07,641 1655497 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@124532,omero.model.LogicalChannel:0:1 2011-04-04 11:28:07,642 1655498 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@f23838,omero.model.LogicalChannel:0:2 2011-04-04 11:28:07,642 1655498 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:28:07,643 1655499 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:28:07,643 1655499 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:751 2011-04-04 11:28:07,643 1655499 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:28:07,644 1655500 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:28:07,645 1655501 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:28:07,698 1655554 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7895 2011-04-04 11:28:07,700 1655556 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:28:07,707 1655563 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:28:08,272 1656128 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:28:08,755 1656611 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:28:09,207 1657063 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:28:09,208 1657064 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:28:09,674 1657530 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:28:09,680 1657536 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:28:09,896 1657752 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:28:09,897 1657753 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:28:09,907 1657763 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:28:21,759 1669615 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:28:21,760 1669616 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 78_G1_2_red.tif 2011-04-04 11:28:22,062 1669918 [2-thread-1] DEBUG loci.common.xml.XMLTools - Content is not allowed in prolog. 2011-04-04 11:28:22,073 1669929 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffDelegateReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\78_G1_2_red.tif) 2011-04-04 11:28:22,073 1669929 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:28:22,078 1669934 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\78_G1_2_red.tif) 2011-04-04 11:28:22,078 1669934 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:28:22,085 1669941 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:28:22,085 1669941 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:28:22,086 1669942 [2-thread-1] INFO loci.formats.FormatHandler - Checking comment style 2011-04-04 11:28:22,098 1669954 [2-thread-1] INFO loci.formats.FormatHandler - Populating OME metadata 2011-04-04 11:28:22,099 1669955 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:28:22,101 1669957 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:28:22,101 1669957 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:28:22,101 1669957 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:28:22,101 1669957 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:28:22,101 1669957 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:28:22,102 1669958 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:28:22,102 1669958 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:28:22,102 1669958 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:28:22,102 1669958 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:28:22,102 1669958 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:28:22,102 1669958 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:28:22,104 1669960 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:28:22,108 1669964 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:28:22,113 1669969 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:28:22,117 1669973 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:28:22,125 1669981 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:28:22,126 1669982 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:28:22,127 1669983 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:28:22,127 1669983 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:28:22,127 1669983 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:28:22,127 1669983 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:28:22,127 1669983 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:28:22,127 1669983 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:28:22,127 1669983 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:28:22,127 1669983 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:28:22,127 1669983 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:28:22,128 1669984 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:28:22,131 1669987 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:28:22,135 1669991 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:28:22,139 1669995 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 78_G1_2_red.tif 2011-04-04 11:28:22,145 1670001 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:28:22,150 1670006 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:28:22,151 1670007 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:28:22,151 1670007 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:28:22,152 1670008 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:28:22,152 1670008 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:28:22,153 1670009 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 78_G1_2_red.tif 2011-04-04 11:28:22,153 1670009 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:28:22,153 1670009 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:28:22,158 1670014 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:28:22,159 1670015 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:28:22,160 1670016 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:28:22,160 1670016 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:28:22,160 1670016 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:28:22,161 1670017 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:28:22,161 1670017 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@1b7c984,Image:0 2011-04-04 11:28:22,162 1670018 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@2fdf53,omero.model.OriginalFile:0 2011-04-04 11:28:22,162 1670018 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@154e317,Pixels:0 2011-04-04 11:28:22,163 1670019 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@1ddcfef,Channel:0:0 2011-04-04 11:28:22,163 1670019 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@a3cf94,omero.model.Channel:0:1 2011-04-04 11:28:22,163 1670019 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@ac9126,omero.model.Channel:0:2 2011-04-04 11:28:22,164 1670020 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@124298d,omero.model.FileAnnotation:0:0 2011-04-04 11:28:22,164 1670020 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@10d2cf0,omero.model.LogicalChannel:0:0 2011-04-04 11:28:22,165 1670021 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@725f5,omero.model.LogicalChannel:0:1 2011-04-04 11:28:22,166 1670022 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@232e5a,omero.model.LogicalChannel:0:2 2011-04-04 11:28:22,166 1670022 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:28:22,167 1670023 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:28:22,167 1670023 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:751 2011-04-04 11:28:22,167 1670023 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:28:22,173 1670029 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:28:22,173 1670029 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:28:22,224 1670080 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7896 2011-04-04 11:28:22,230 1670086 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:28:22,237 1670093 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:28:22,823 1670679 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:28:23,291 1671147 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:28:23,760 1671616 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:28:23,760 1671616 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:28:24,217 1672073 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:28:24,218 1672074 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:28:24,445 1672301 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:28:24,446 1672302 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:28:24,454 1672310 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:28:36,003 1683859 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:28:36,004 1683860 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 78_G1_2_yellow.tif 2011-04-04 11:28:36,235 1684091 [2-thread-1] DEBUG loci.common.xml.XMLTools - Content is not allowed in prolog. 2011-04-04 11:28:36,277 1684133 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffDelegateReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\78_G1_2_yellow.tif) 2011-04-04 11:28:36,277 1684133 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:28:36,282 1684138 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\78_G1_2_yellow.tif) 2011-04-04 11:28:36,282 1684138 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:28:36,291 1684147 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:28:36,291 1684147 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:28:36,292 1684148 [2-thread-1] INFO loci.formats.FormatHandler - Checking comment style 2011-04-04 11:28:36,305 1684161 [2-thread-1] INFO loci.formats.FormatHandler - Populating OME metadata 2011-04-04 11:28:36,305 1684161 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:28:36,306 1684162 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:28:36,307 1684163 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:28:36,307 1684163 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:28:36,307 1684163 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:28:36,307 1684163 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:28:36,307 1684163 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:28:36,307 1684163 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:28:36,307 1684163 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:28:36,307 1684163 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:28:36,308 1684164 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:28:36,308 1684164 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:28:36,310 1684166 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:28:36,314 1684170 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:28:36,319 1684175 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:28:36,321 1684177 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:28:36,325 1684181 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:28:36,329 1684185 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:28:36,329 1684185 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:28:36,329 1684185 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:28:36,329 1684185 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:28:36,329 1684185 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:28:36,330 1684186 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:28:36,330 1684186 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:28:36,330 1684186 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:28:36,330 1684186 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:28:36,330 1684186 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:28:36,330 1684186 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:28:36,332 1684188 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:28:36,336 1684192 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:28:36,340 1684196 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 78_G1_2_yellow.tif 2011-04-04 11:28:36,345 1684201 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:28:36,351 1684207 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:28:36,351 1684207 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:28:36,352 1684208 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:28:36,352 1684208 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:28:36,353 1684209 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:28:36,353 1684209 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 78_G1_2_yellow.tif 2011-04-04 11:28:36,354 1684210 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:28:36,354 1684210 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:28:36,355 1684211 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:28:36,356 1684212 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:28:36,356 1684212 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:28:36,357 1684213 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:28:36,357 1684213 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:28:36,358 1684214 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:28:36,358 1684214 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@1a9542c,Image:0 2011-04-04 11:28:36,359 1684215 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@1f2a8f5,omero.model.OriginalFile:0 2011-04-04 11:28:36,360 1684216 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@9ec9cd,Pixels:0 2011-04-04 11:28:36,364 1684220 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@12036a1,Channel:0:0 2011-04-04 11:28:36,365 1684221 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@154a2e6,omero.model.Channel:0:1 2011-04-04 11:28:36,365 1684221 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@48d0ea,omero.model.Channel:0:2 2011-04-04 11:28:36,366 1684222 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@8610c4,omero.model.FileAnnotation:0:0 2011-04-04 11:28:36,366 1684222 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@199e2e2,omero.model.LogicalChannel:0:0 2011-04-04 11:28:36,367 1684223 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@14c8743,omero.model.LogicalChannel:0:1 2011-04-04 11:28:36,367 1684223 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@7eedbb,omero.model.LogicalChannel:0:2 2011-04-04 11:28:36,367 1684223 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:28:36,368 1684224 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:28:36,368 1684224 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:751 2011-04-04 11:28:36,369 1684225 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:28:36,369 1684225 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:28:36,370 1684226 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:28:36,421 1684277 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7897 2011-04-04 11:28:36,430 1684286 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:28:36,437 1684293 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:28:37,004 1684860 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:28:37,485 1685341 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:28:37,960 1685816 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:28:37,961 1685817 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:28:38,414 1686270 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:28:38,416 1686272 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:28:38,630 1686486 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:28:38,632 1686488 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:28:38,637 1686493 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:28:44,576 1692432 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:28:50,206 1698062 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:28:50,207 1698063 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 80_E6_2_blue.tif 2011-04-04 11:28:50,486 1698342 [2-thread-1] DEBUG loci.common.xml.XMLTools - Content is not allowed in prolog. 2011-04-04 11:28:50,497 1698353 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffDelegateReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\80_E6_2_blue.tif) 2011-04-04 11:28:50,497 1698353 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:28:50,501 1698357 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\80_E6_2_blue.tif) 2011-04-04 11:28:50,501 1698357 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:28:50,507 1698363 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:28:50,508 1698364 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:28:50,508 1698364 [2-thread-1] INFO loci.formats.FormatHandler - Checking comment style 2011-04-04 11:28:50,521 1698377 [2-thread-1] INFO loci.formats.FormatHandler - Populating OME metadata 2011-04-04 11:28:50,521 1698377 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:28:50,522 1698378 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:28:50,522 1698378 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:28:50,522 1698378 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:28:50,522 1698378 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:28:50,523 1698379 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:28:50,523 1698379 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:28:50,523 1698379 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:28:50,523 1698379 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:28:50,523 1698379 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:28:50,523 1698379 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:28:50,524 1698380 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:28:50,526 1698382 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:28:50,534 1698390 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:28:50,536 1698392 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:28:50,539 1698395 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:28:50,543 1698399 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:28:50,548 1698404 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:28:50,548 1698404 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:28:50,548 1698404 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:28:50,548 1698404 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:28:50,548 1698404 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:28:50,548 1698404 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:28:50,548 1698404 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:28:50,549 1698405 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:28:50,549 1698405 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:28:50,549 1698405 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:28:50,549 1698405 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:28:50,555 1698411 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:28:50,556 1698412 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:28:50,560 1698416 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 80_E6_2_blue.tif 2011-04-04 11:28:50,564 1698420 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:28:50,570 1698426 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:28:50,571 1698427 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:28:50,571 1698427 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:28:50,572 1698428 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:28:50,572 1698428 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:28:50,573 1698429 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 80_E6_2_blue.tif 2011-04-04 11:28:50,573 1698429 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:28:50,574 1698430 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:28:50,574 1698430 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:28:50,584 1698440 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:28:50,584 1698440 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:28:50,585 1698441 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:28:50,585 1698441 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:28:50,586 1698442 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:28:50,586 1698442 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@14c5ac0,Image:0 2011-04-04 11:28:50,587 1698443 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@cb1cbd,omero.model.OriginalFile:0 2011-04-04 11:28:50,587 1698443 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@165acfc,Pixels:0 2011-04-04 11:28:50,588 1698444 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@2ab475,Channel:0:0 2011-04-04 11:28:50,588 1698444 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@628354,omero.model.Channel:0:1 2011-04-04 11:28:50,588 1698444 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@1498436,omero.model.Channel:0:2 2011-04-04 11:28:50,589 1698445 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@193d23b,omero.model.FileAnnotation:0:0 2011-04-04 11:28:50,589 1698445 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@5dfc5e,omero.model.LogicalChannel:0:0 2011-04-04 11:28:50,590 1698446 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@112481a,omero.model.LogicalChannel:0:1 2011-04-04 11:28:50,590 1698446 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@a16748,omero.model.LogicalChannel:0:2 2011-04-04 11:28:50,591 1698447 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:28:50,591 1698447 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:28:50,592 1698448 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:751 2011-04-04 11:28:50,592 1698448 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:28:50,593 1698449 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:28:50,593 1698449 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:28:50,643 1698499 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7898 2011-04-04 11:28:50,648 1698504 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:28:50,655 1698511 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:28:51,232 1699088 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:28:51,710 1699566 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:28:52,194 1700050 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:28:52,195 1700051 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:28:52,630 1700486 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:28:52,631 1700487 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:28:52,863 1700719 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:28:52,864 1700720 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:28:52,884 1700740 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:29:04,335 1712191 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:29:04,336 1712192 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 80_E6_2_green.tif 2011-04-04 11:29:04,594 1712450 [2-thread-1] DEBUG loci.common.xml.XMLTools - Content is not allowed in prolog. 2011-04-04 11:29:04,605 1712461 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffDelegateReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\80_E6_2_green.tif) 2011-04-04 11:29:04,605 1712461 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:29:04,609 1712465 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\80_E6_2_green.tif) 2011-04-04 11:29:04,609 1712465 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:29:04,616 1712472 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:29:04,617 1712473 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:29:04,617 1712473 [2-thread-1] INFO loci.formats.FormatHandler - Checking comment style 2011-04-04 11:29:04,631 1712487 [2-thread-1] INFO loci.formats.FormatHandler - Populating OME metadata 2011-04-04 11:29:04,631 1712487 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:29:04,633 1712489 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:29:04,633 1712489 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:29:04,633 1712489 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:29:04,633 1712489 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:29:04,633 1712489 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:29:04,634 1712490 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:29:04,634 1712490 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:29:04,634 1712490 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:29:04,634 1712490 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:29:04,634 1712490 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:29:04,634 1712490 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:29:04,636 1712492 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:29:04,640 1712496 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:29:04,649 1712505 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:29:04,649 1712505 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:29:04,653 1712509 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:29:04,658 1712514 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:29:04,658 1712514 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:29:04,658 1712514 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:29:04,658 1712514 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:29:04,658 1712514 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:29:04,658 1712514 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:29:04,658 1712514 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:29:04,659 1712515 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:29:04,659 1712515 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:29:04,659 1712515 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:29:04,659 1712515 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:29:04,663 1712519 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:29:04,667 1712523 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:29:04,676 1712532 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 80_E6_2_green.tif 2011-04-04 11:29:04,677 1712533 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:29:04,683 1712539 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:29:04,683 1712539 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:29:04,684 1712540 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:29:04,684 1712540 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:29:04,685 1712541 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:29:04,685 1712541 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 80_E6_2_green.tif 2011-04-04 11:29:04,686 1712542 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:29:04,686 1712542 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:29:04,687 1712543 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:29:04,687 1712543 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:29:04,693 1712549 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:29:04,693 1712549 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:29:04,694 1712550 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:29:04,694 1712550 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:29:04,695 1712551 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@11131dc,Image:0 2011-04-04 11:29:04,696 1712552 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@1bcd1b,omero.model.OriginalFile:0 2011-04-04 11:29:04,696 1712552 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@1b2c43e,Pixels:0 2011-04-04 11:29:04,697 1712553 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@1e8c1ec,Channel:0:0 2011-04-04 11:29:04,697 1712553 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@7b2390,omero.model.Channel:0:1 2011-04-04 11:29:04,698 1712554 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@1a29fe,omero.model.Channel:0:2 2011-04-04 11:29:04,698 1712554 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@1beaa92,omero.model.FileAnnotation:0:0 2011-04-04 11:29:04,699 1712555 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@18debb,omero.model.LogicalChannel:0:0 2011-04-04 11:29:04,699 1712555 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@1930b4b,omero.model.LogicalChannel:0:1 2011-04-04 11:29:04,699 1712555 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@76ec1a,omero.model.LogicalChannel:0:2 2011-04-04 11:29:04,700 1712556 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:29:04,701 1712557 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:29:04,701 1712557 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:751 2011-04-04 11:29:04,702 1712558 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:29:04,702 1712558 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:29:04,703 1712559 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:29:04,752 1712608 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7899 2011-04-04 11:29:04,756 1712612 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:29:04,763 1712619 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:29:05,343 1713199 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:29:05,818 1713674 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:29:06,305 1714161 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:29:06,306 1714162 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:29:06,763 1714619 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:29:06,764 1714620 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:29:06,990 1714846 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:29:06,991 1714847 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:29:07,002 1714858 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:29:19,143 1726999 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:29:19,146 1727002 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 80_E6_2_red.tif 2011-04-04 11:29:19,622 1727478 [2-thread-1] DEBUG loci.common.xml.XMLTools - Content is not allowed in prolog. 2011-04-04 11:29:19,633 1727489 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffDelegateReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\80_E6_2_red.tif) 2011-04-04 11:29:19,633 1727489 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:29:19,638 1727494 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\80_E6_2_red.tif) 2011-04-04 11:29:19,638 1727494 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:29:19,643 1727499 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:29:19,644 1727500 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:29:19,644 1727500 [2-thread-1] INFO loci.formats.FormatHandler - Checking comment style 2011-04-04 11:29:19,658 1727514 [2-thread-1] INFO loci.formats.FormatHandler - Populating OME metadata 2011-04-04 11:29:19,658 1727514 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:29:19,659 1727515 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:29:19,659 1727515 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:29:19,659 1727515 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:29:19,659 1727515 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:29:19,659 1727515 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:29:19,659 1727515 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:29:19,660 1727516 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:29:19,660 1727516 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:29:19,660 1727516 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:29:19,660 1727516 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:29:19,660 1727516 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:29:19,663 1727519 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:29:19,667 1727523 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:29:19,672 1727528 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:29:19,675 1727531 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:29:19,678 1727534 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:29:19,684 1727540 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:29:19,685 1727541 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:29:19,686 1727542 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:29:19,686 1727542 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:29:19,686 1727542 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:29:19,687 1727543 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:29:19,687 1727543 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:29:19,687 1727543 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:29:19,687 1727543 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:29:19,687 1727543 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:29:19,687 1727543 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:29:19,692 1727548 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:29:19,696 1727552 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:29:19,703 1727559 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 80_E6_2_red.tif 2011-04-04 11:29:19,704 1727560 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:29:19,710 1727566 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:29:19,710 1727566 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:29:19,711 1727567 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:29:19,712 1727568 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:29:19,712 1727568 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:29:19,712 1727568 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 80_E6_2_red.tif 2011-04-04 11:29:19,713 1727569 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:29:19,713 1727569 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:29:19,714 1727570 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:29:19,714 1727570 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:29:19,719 1727575 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:29:19,719 1727575 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:29:19,720 1727576 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:29:19,720 1727576 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:29:19,721 1727577 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@615c8b,Image:0 2011-04-04 11:29:19,721 1727577 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@a742a1,omero.model.OriginalFile:0 2011-04-04 11:29:19,722 1727578 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@1cd15da,Pixels:0 2011-04-04 11:29:19,722 1727578 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@7c6928,Channel:0:0 2011-04-04 11:29:19,723 1727579 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@ea86ad,omero.model.Channel:0:1 2011-04-04 11:29:19,723 1727579 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@14bc6a3,omero.model.Channel:0:2 2011-04-04 11:29:19,724 1727580 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@1df58ee,omero.model.FileAnnotation:0:0 2011-04-04 11:29:19,724 1727580 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@ec078b,omero.model.LogicalChannel:0:0 2011-04-04 11:29:19,724 1727580 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@1f57de9,omero.model.LogicalChannel:0:1 2011-04-04 11:29:19,725 1727581 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@b7ad1a,omero.model.LogicalChannel:0:2 2011-04-04 11:29:19,725 1727581 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:29:19,726 1727582 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:29:19,726 1727582 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:751 2011-04-04 11:29:19,726 1727582 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:29:19,727 1727583 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:29:19,727 1727583 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:29:19,781 1727637 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7900 2011-04-04 11:29:19,785 1727641 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:29:19,792 1727648 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:29:20,372 1728228 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:29:20,846 1728702 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:29:21,318 1729174 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:29:21,319 1729175 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:29:21,810 1729666 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:29:21,820 1729676 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:29:22,085 1729941 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:29:22,090 1729946 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:29:22,094 1729950 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:29:33,525 1741381 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:29:33,526 1741382 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 80_E6_2_yellow.tif 2011-04-04 11:29:33,826 1741682 [2-thread-1] DEBUG loci.common.xml.XMLTools - Content is not allowed in prolog. 2011-04-04 11:29:33,837 1741693 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffDelegateReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\80_E6_2_yellow.tif) 2011-04-04 11:29:33,837 1741693 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:29:33,844 1741700 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\80_E6_2_yellow.tif) 2011-04-04 11:29:33,844 1741700 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:29:33,851 1741707 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:29:33,851 1741707 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:29:33,851 1741707 [2-thread-1] INFO loci.formats.FormatHandler - Checking comment style 2011-04-04 11:29:33,866 1741722 [2-thread-1] INFO loci.formats.FormatHandler - Populating OME metadata 2011-04-04 11:29:33,866 1741722 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:29:33,878 1741734 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:29:33,878 1741734 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:29:33,878 1741734 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:29:33,878 1741734 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:29:33,878 1741734 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:29:33,879 1741735 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:29:33,879 1741735 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:29:33,880 1741736 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:29:33,880 1741736 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:29:33,880 1741736 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:29:33,880 1741736 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:29:33,881 1741737 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:29:33,885 1741741 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:29:33,891 1741747 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:29:33,900 1741756 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:29:33,901 1741757 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:29:33,905 1741761 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:29:33,906 1741762 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:29:33,906 1741762 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:29:33,906 1741762 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:29:33,906 1741762 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:29:33,906 1741762 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:29:33,906 1741762 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:29:33,906 1741762 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:29:33,906 1741762 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:29:33,907 1741763 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:29:33,907 1741763 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:29:33,918 1741774 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:29:33,919 1741775 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:29:33,923 1741779 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 80_E6_2_yellow.tif 2011-04-04 11:29:33,930 1741786 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:29:33,938 1741794 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:29:33,943 1741799 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:29:33,948 1741804 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:29:33,949 1741805 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:29:33,949 1741805 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:29:33,949 1741805 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 80_E6_2_yellow.tif 2011-04-04 11:29:33,950 1741806 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:29:33,950 1741806 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:29:33,951 1741807 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:29:33,952 1741808 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:29:33,952 1741808 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:29:33,953 1741809 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:29:33,953 1741809 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:29:33,954 1741810 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:29:33,954 1741810 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@e0e0e2,Image:0 2011-04-04 11:29:33,954 1741810 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@11b3435,omero.model.OriginalFile:0 2011-04-04 11:29:33,955 1741811 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@68e6bf,Pixels:0 2011-04-04 11:29:33,955 1741811 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@102d823,Channel:0:0 2011-04-04 11:29:33,956 1741812 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@1083fae,omero.model.Channel:0:1 2011-04-04 11:29:33,962 1741818 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@1810a1,omero.model.Channel:0:2 2011-04-04 11:29:33,963 1741819 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@477156,omero.model.FileAnnotation:0:0 2011-04-04 11:29:33,963 1741819 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1ce6303,omero.model.LogicalChannel:0:0 2011-04-04 11:29:33,963 1741819 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@2792fa,omero.model.LogicalChannel:0:1 2011-04-04 11:29:33,964 1741820 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@14b1008,omero.model.LogicalChannel:0:2 2011-04-04 11:29:33,964 1741820 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:29:33,965 1741821 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:29:33,965 1741821 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:751 2011-04-04 11:29:33,965 1741821 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:29:33,966 1741822 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:29:33,966 1741822 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:29:34,026 1741882 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7901 2011-04-04 11:29:34,027 1741883 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:29:34,038 1741894 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:29:34,637 1742493 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:29:35,115 1742971 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:29:35,610 1743466 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:29:35,617 1743473 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:29:36,079 1743935 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:29:36,085 1743941 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:29:36,292 1744148 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:29:36,292 1744148 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:29:36,301 1744157 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:29:44,575 1752431 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:29:48,427 1756283 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:29:48,428 1756284 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 8_G5_2_blue.tif 2011-04-04 11:29:48,703 1756559 [2-thread-1] DEBUG loci.common.xml.XMLTools - Content is not allowed in prolog. 2011-04-04 11:29:48,713 1756569 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffDelegateReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\8_G5_2_blue.tif) 2011-04-04 11:29:48,714 1756570 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:29:48,723 1756579 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\8_G5_2_blue.tif) 2011-04-04 11:29:48,723 1756579 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:29:48,730 1756586 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:29:48,730 1756586 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:29:48,731 1756587 [2-thread-1] INFO loci.formats.FormatHandler - Checking comment style 2011-04-04 11:29:48,744 1756600 [2-thread-1] INFO loci.formats.FormatHandler - Populating OME metadata 2011-04-04 11:29:48,744 1756600 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:29:48,746 1756602 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:29:48,746 1756602 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:29:48,746 1756602 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:29:48,746 1756602 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:29:48,746 1756602 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:29:48,746 1756602 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:29:48,746 1756602 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:29:48,747 1756603 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:29:48,747 1756603 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:29:48,747 1756603 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:29:48,747 1756603 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:29:48,748 1756604 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:29:48,752 1756608 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:29:48,757 1756613 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:29:48,760 1756616 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:29:48,767 1756623 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:29:48,768 1756624 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:29:48,768 1756624 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:29:48,768 1756624 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:29:48,768 1756624 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:29:48,768 1756624 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:29:48,769 1756625 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:29:48,769 1756625 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:29:48,769 1756625 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:29:48,769 1756625 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:29:48,769 1756625 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:29:48,769 1756625 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:29:48,772 1756628 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:29:48,775 1756631 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:29:48,779 1756635 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 8_G5_2_blue.tif 2011-04-04 11:29:48,783 1756639 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:29:48,789 1756645 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:29:48,790 1756646 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:29:48,790 1756646 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:29:48,792 1756648 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:29:48,793 1756649 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:29:48,793 1756649 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 8_G5_2_blue.tif 2011-04-04 11:29:48,797 1756653 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:29:48,798 1756654 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:29:48,799 1756655 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:29:48,799 1756655 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:29:48,800 1756656 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:29:48,800 1756656 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:29:48,801 1756657 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:29:48,801 1756657 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:29:48,802 1756658 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@1e64656,Image:0 2011-04-04 11:29:48,802 1756658 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@16127f4,omero.model.OriginalFile:0 2011-04-04 11:29:48,803 1756659 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@df80ff,Pixels:0 2011-04-04 11:29:48,803 1756659 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@10fa4d,Channel:0:0 2011-04-04 11:29:48,804 1756660 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@14611ec,omero.model.Channel:0:1 2011-04-04 11:29:48,804 1756660 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@863854,omero.model.Channel:0:2 2011-04-04 11:29:48,805 1756661 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@1e09e6a,omero.model.FileAnnotation:0:0 2011-04-04 11:29:48,805 1756661 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1e2d461,omero.model.LogicalChannel:0:0 2011-04-04 11:29:48,806 1756662 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@5abf3f,omero.model.LogicalChannel:0:1 2011-04-04 11:29:48,806 1756662 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@1bacc03,omero.model.LogicalChannel:0:2 2011-04-04 11:29:48,806 1756662 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:29:48,807 1756663 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:29:48,808 1756664 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:751 2011-04-04 11:29:48,809 1756665 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:29:48,809 1756665 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:29:48,810 1756666 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:29:48,861 1756717 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7902 2011-04-04 11:29:48,867 1756723 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:29:48,874 1756730 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:29:49,439 1757295 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:29:49,922 1757778 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:29:50,410 1758266 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:29:50,411 1758267 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:29:50,879 1758735 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:29:50,880 1758736 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:29:51,083 1758939 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:29:51,084 1758940 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:29:51,096 1758952 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:30:02,613 1770469 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:30:02,614 1770470 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 8_G5_2_green.tif 2011-04-04 11:30:02,826 1770682 [2-thread-1] DEBUG loci.common.xml.XMLTools - Content is not allowed in prolog. 2011-04-04 11:30:02,836 1770692 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffDelegateReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\8_G5_2_green.tif) 2011-04-04 11:30:02,836 1770692 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:30:02,842 1770698 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\8_G5_2_green.tif) 2011-04-04 11:30:02,842 1770698 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:30:02,848 1770704 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:30:02,848 1770704 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:30:02,849 1770705 [2-thread-1] INFO loci.formats.FormatHandler - Checking comment style 2011-04-04 11:30:02,862 1770718 [2-thread-1] INFO loci.formats.FormatHandler - Populating OME metadata 2011-04-04 11:30:02,863 1770719 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:30:02,864 1770720 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:30:02,864 1770720 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:30:02,864 1770720 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:30:02,864 1770720 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:30:02,864 1770720 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:30:02,865 1770721 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:30:02,865 1770721 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:30:02,865 1770721 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:30:02,865 1770721 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:30:02,865 1770721 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:30:02,865 1770721 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:30:02,871 1770727 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:30:02,871 1770727 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:30:02,876 1770732 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:30:02,880 1770736 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:30:02,880 1770736 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:30:02,885 1770741 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:30:02,885 1770741 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:30:02,885 1770741 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:30:02,885 1770741 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:30:02,885 1770741 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:30:02,885 1770741 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:30:02,885 1770741 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:30:02,886 1770742 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:30:02,886 1770742 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:30:02,886 1770742 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:30:02,886 1770742 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:30:02,888 1770744 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:30:02,892 1770748 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:30:02,896 1770752 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 8_G5_2_green.tif 2011-04-04 11:30:02,897 1770753 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:30:02,903 1770759 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:30:02,904 1770760 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:30:02,904 1770760 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:30:02,905 1770761 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:30:02,905 1770761 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:30:02,906 1770762 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 8_G5_2_green.tif 2011-04-04 11:30:02,906 1770762 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:30:02,907 1770763 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:30:02,907 1770763 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:30:02,911 1770767 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:30:02,912 1770768 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:30:02,912 1770768 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:30:02,913 1770769 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:30:02,914 1770770 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:30:02,914 1770770 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@2438db,Image:0 2011-04-04 11:30:02,915 1770771 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@97ccbc,omero.model.OriginalFile:0 2011-04-04 11:30:02,915 1770771 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@345c87,Pixels:0 2011-04-04 11:30:02,916 1770772 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@1652035,Channel:0:0 2011-04-04 11:30:02,916 1770772 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@3ed98c,omero.model.Channel:0:1 2011-04-04 11:30:02,917 1770773 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@1fce3d5,omero.model.Channel:0:2 2011-04-04 11:30:02,917 1770773 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@10eaae5,omero.model.FileAnnotation:0:0 2011-04-04 11:30:02,918 1770774 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1c6d458,omero.model.LogicalChannel:0:0 2011-04-04 11:30:02,918 1770774 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@115441f,omero.model.LogicalChannel:0:1 2011-04-04 11:30:02,919 1770775 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@1095197,omero.model.LogicalChannel:0:2 2011-04-04 11:30:02,919 1770775 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:30:02,919 1770775 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:30:02,920 1770776 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:751 2011-04-04 11:30:02,920 1770776 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:30:02,921 1770777 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:30:02,921 1770777 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:30:02,970 1770826 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7903 2011-04-04 11:30:02,978 1770834 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:30:02,985 1770841 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:30:03,570 1771426 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:30:04,041 1771897 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:30:04,495 1772351 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:30:04,496 1772352 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:30:04,949 1772805 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:30:04,950 1772806 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:30:05,178 1773034 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:30:05,179 1773035 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:30:05,183 1773039 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:30:16,924 1784780 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:30:16,925 1784781 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 8_G5_2_red.tif 2011-04-04 11:30:17,381 1785237 [2-thread-1] DEBUG loci.common.xml.XMLTools - Content is not allowed in prolog. 2011-04-04 11:30:17,391 1785247 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffDelegateReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\8_G5_2_red.tif) 2011-04-04 11:30:17,391 1785247 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:30:17,396 1785252 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\8_G5_2_red.tif) 2011-04-04 11:30:17,396 1785252 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:30:17,403 1785259 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:30:17,403 1785259 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:30:17,404 1785260 [2-thread-1] INFO loci.formats.FormatHandler - Checking comment style 2011-04-04 11:30:17,417 1785273 [2-thread-1] INFO loci.formats.FormatHandler - Populating OME metadata 2011-04-04 11:30:17,418 1785274 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:30:17,419 1785275 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:30:17,419 1785275 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:30:17,419 1785275 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:30:17,419 1785275 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:30:17,419 1785275 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:30:17,419 1785275 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:30:17,419 1785275 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:30:17,420 1785276 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:30:17,420 1785276 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:30:17,420 1785276 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:30:17,420 1785276 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:30:17,422 1785278 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:30:17,429 1785285 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:30:17,431 1785287 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:30:17,434 1785290 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:30:17,437 1785293 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:30:17,441 1785297 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:30:17,441 1785297 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:30:17,441 1785297 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:30:17,441 1785297 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:30:17,441 1785297 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:30:17,442 1785298 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:30:17,442 1785298 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:30:17,442 1785298 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:30:17,442 1785298 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:30:17,442 1785298 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:30:17,442 1785298 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:30:17,444 1785300 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:30:17,452 1785308 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:30:17,453 1785309 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 8_G5_2_red.tif 2011-04-04 11:30:17,457 1785313 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:30:17,464 1785320 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:30:17,464 1785320 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:30:17,465 1785321 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:30:17,465 1785321 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:30:17,465 1785321 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:30:17,466 1785322 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 8_G5_2_red.tif 2011-04-04 11:30:17,466 1785322 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:30:17,467 1785323 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:30:17,467 1785323 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:30:17,469 1785325 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:30:17,473 1785329 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:30:17,474 1785330 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:30:17,474 1785330 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:30:17,475 1785331 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:30:17,475 1785331 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@b7e05f,Image:0 2011-04-04 11:30:17,475 1785331 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@59e40,omero.model.OriginalFile:0 2011-04-04 11:30:17,476 1785332 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@11d5216,Pixels:0 2011-04-04 11:30:17,476 1785332 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@d209b,Channel:0:0 2011-04-04 11:30:17,477 1785333 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@bd40ef,omero.model.Channel:0:1 2011-04-04 11:30:17,477 1785333 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@13e877,omero.model.Channel:0:2 2011-04-04 11:30:17,478 1785334 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@1ffcd45,omero.model.FileAnnotation:0:0 2011-04-04 11:30:17,478 1785334 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@11a3a26,omero.model.LogicalChannel:0:0 2011-04-04 11:30:17,479 1785335 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@24332f,omero.model.LogicalChannel:0:1 2011-04-04 11:30:17,479 1785335 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@15f918,omero.model.LogicalChannel:0:2 2011-04-04 11:30:17,479 1785335 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:30:17,480 1785336 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:30:17,480 1785336 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:751 2011-04-04 11:30:17,481 1785337 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:30:17,481 1785337 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:30:17,481 1785337 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:30:17,532 1785388 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7904 2011-04-04 11:30:17,540 1785396 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:30:17,548 1785404 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:30:18,108 1785964 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:30:18,563 1786419 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:30:19,036 1786892 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:30:19,036 1786892 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:30:19,517 1787373 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:30:19,518 1787374 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:30:19,749 1787605 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:30:19,750 1787606 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:30:19,757 1787613 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:30:31,314 1799170 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:30:31,315 1799171 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 8_G5_2_yellow.tif 2011-04-04 11:30:32,301 1800157 [2-thread-1] DEBUG loci.common.xml.XMLTools - Content is not allowed in prolog. 2011-04-04 11:30:32,312 1800168 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffDelegateReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\8_G5_2_yellow.tif) 2011-04-04 11:30:32,312 1800168 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:30:32,317 1800173 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.TiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images_tiff\8_G5_2_yellow.tif) 2011-04-04 11:30:32,317 1800173 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:30:32,323 1800179 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:30:32,323 1800179 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:30:32,324 1800180 [2-thread-1] INFO loci.formats.FormatHandler - Checking comment style 2011-04-04 11:30:32,339 1800195 [2-thread-1] INFO loci.formats.FormatHandler - Populating OME metadata 2011-04-04 11:30:32,339 1800195 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:30:32,341 1800197 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:30:32,341 1800197 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:30:32,341 1800197 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:30:32,341 1800197 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:30:32,341 1800197 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:30:32,342 1800198 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:30:32,342 1800198 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:30:32,342 1800198 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:30:32,342 1800198 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:30:32,342 1800198 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:30:32,342 1800198 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:30:32,344 1800200 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:30:32,348 1800204 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:30:32,353 1800209 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:30:32,357 1800213 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:30:32,361 1800217 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: TiffDelegate 2011-04-04 11:30:32,366 1800222 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:30:32,366 1800222 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:30:32,366 1800222 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:30:32,366 1800222 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:30:32,366 1800222 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:30:32,366 1800222 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:30:32,366 1800222 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:30:32,367 1800223 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:30:32,367 1800223 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:30:32,367 1800223 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:30:32,367 1800223 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:30:32,370 1800226 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:30:32,370 1800226 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:30:32,375 1800231 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 8_G5_2_yellow.tif 2011-04-04 11:30:32,384 1800240 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:30:32,386 1800242 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:30:32,410 1800266 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:30:32,411 1800267 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:30:32,411 1800267 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:30:32,412 1800268 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:30:32,412 1800268 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 8_G5_2_yellow.tif 2011-04-04 11:30:32,413 1800269 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:30:32,414 1800270 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:30:32,414 1800270 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:30:32,416 1800272 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:30:32,417 1800273 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:30:32,417 1800273 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:30:32,418 1800274 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:30:32,419 1800275 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:30:32,419 1800275 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@19015c9,Image:0 2011-04-04 11:30:32,420 1800276 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@110d1f9,omero.model.OriginalFile:0 2011-04-04 11:30:32,421 1800277 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@1b191c4,Pixels:0 2011-04-04 11:30:32,421 1800277 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@191ff7e,Channel:0:0 2011-04-04 11:30:32,422 1800278 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@55da06,omero.model.Channel:0:1 2011-04-04 11:30:32,425 1800281 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@544a45,omero.model.Channel:0:2 2011-04-04 11:30:32,425 1800281 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@5ebdf7,omero.model.FileAnnotation:0:0 2011-04-04 11:30:32,426 1800282 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@b2aaa6,omero.model.LogicalChannel:0:0 2011-04-04 11:30:32,426 1800282 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@df20ae,omero.model.LogicalChannel:0:1 2011-04-04 11:30:32,427 1800283 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@dd2ac6,omero.model.LogicalChannel:0:2 2011-04-04 11:30:32,428 1800284 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:30:32,428 1800284 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:30:32,429 1800285 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:751 2011-04-04 11:30:32,429 1800285 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:30:32,430 1800286 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:30:32,430 1800286 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:30:32,479 1800335 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7905 2011-04-04 11:30:32,492 1800348 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:30:32,500 1800356 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:30:33,061 1800917 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:30:33,539 1801395 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:30:34,016 1801872 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:30:34,017 1801873 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:30:34,442 1802298 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:30:34,443 1802299 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:30:34,679 1802535 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:30:34,680 1802536 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:30:34,689 1802545 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:30:44,574 1812430 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:31:44,574 1872430 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:32:18,985 1906841 [entQueue-0] INFO me.formats.importer.gui.FileQueueHandler - Scheduling candidate calculations(3)=[C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (10).tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (11).tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (12).tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (13).tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (14).tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (15).tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (16).tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (17).tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (18).tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (19).tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (2).tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (20).tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (21).tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (22).tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (23).tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (3).tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (4).tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (5).tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (6).tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (7).tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (8).tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (9).tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome.tif] 2011-04-04 11:32:18,990 1906846 [entQueue-0] INFO me.formats.importer.gui.FileQueueHandler - Handling import containers(3)=[C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (10).tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (11).tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (12).tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (13).tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (14).tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (15).tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (16).tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (17).tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (18).tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (19).tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (2).tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (20).tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (21).tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (22).tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (23).tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (3).tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (4).tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (5).tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (6).tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (7).tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (8).tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (9).tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy.tif, C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome.tif] 2011-04-04 11:32:38,697 1926553 [2-thread-1] INFO ome.formats.importer.gui.ImportHandler - Background: Importing images 2011-04-04 11:32:38,709 1926565 [2-thread-1] DEBUG ome.formats.importer.gui.ImportHandler - New importKey for history db is: 42 2011-04-04 11:32:38,960 1926816 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:32:38,961 1926817 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 001_1_001.ome - Copy (10).tif 2011-04-04 11:32:42,418 1930274 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.OMETiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (10).tif) 2011-04-04 11:32:42,419 1930275 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:32:42,492 1930348 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: OMETiff 2011-04-04 11:32:42,497 1930353 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: OMETiff 2011-04-04 11:32:42,499 1930355 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:32:42,505 1930361 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:32:42,506 1930362 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:32:42,510 1930366 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYZCT 2011-04-04 11:32:42,513 1930369 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:32:42,518 1930374 [2-thread-1] DEBUG loci.formats.FormatHandler - Image[0] { 2011-04-04 11:32:42,518 1930374 [2-thread-1] DEBUG loci.formats.FormatHandler - id = urn:lsid:export.openmicroscopy.org:Image:51c3a594-2ec4-449b-a9a9-cdfde6d51ecd_4578:31364 2011-04-04 11:32:42,519 1930375 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[0] { 2011-04-04 11:32:42,519 1930375 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[0]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (10).tif, IFD=0 2011-04-04 11:32:42,519 1930375 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: CLEARED 2011-04-04 11:32:42,520 1930376 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: CLEARED 2011-04-04 11:32:42,520 1930376 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:32:42,520 1930376 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[1] { 2011-04-04 11:32:42,520 1930376 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (10).tif, IFD=1 2011-04-04 11:32:42,520 1930376 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: CLEARED 2011-04-04 11:32:42,520 1930376 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:32:42,520 1930376 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[2] { 2011-04-04 11:32:42,521 1930377 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (10).tif, IFD=2 2011-04-04 11:32:42,521 1930377 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:32:42,521 1930377 [2-thread-1] DEBUG loci.formats.FormatHandler - -------------------------------- 2011-04-04 11:32:42,521 1930377 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[0]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (10).tif, IFD=0 2011-04-04 11:32:42,521 1930377 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (10).tif, IFD=1 2011-04-04 11:32:42,521 1930377 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (10).tif, IFD=2 2011-04-04 11:32:42,521 1930377 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:32:42,523 1930379 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:32:42,523 1930379 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:32:42,523 1930379 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:32:42,523 1930379 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:32:42,523 1930379 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:32:42,523 1930379 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:32:42,523 1930379 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:32:42,523 1930379 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:32:42,523 1930379 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:32:42,524 1930380 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:32:42,524 1930380 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:32:42,524 1930380 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:32:42,528 1930384 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.MinimalTiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (10).tif) 2011-04-04 11:32:42,530 1930386 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:32:42,587 1930443 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:32:42,592 1930448 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:32:42,592 1930448 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:32:42,593 1930449 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:32:42,593 1930449 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:32:42,593 1930449 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:32:42,593 1930449 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:32:42,593 1930449 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:32:42,593 1930449 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:32:42,593 1930449 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:32:42,593 1930449 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:32:42,594 1930450 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:32:42,594 1930450 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:32:42,598 1930454 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:32:42,602 1930458 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 001_1_001.ome - Copy (10).tif 2011-04-04 11:32:42,606 1930462 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:32:42,612 1930468 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:32:42,613 1930469 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:32:42,613 1930469 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:32:42,614 1930470 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:32:42,614 1930470 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:32:42,614 1930470 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 001_1_001.ome - Copy (10).tif 2011-04-04 11:32:42,615 1930471 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:32:42,615 1930471 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:32:42,619 1930475 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:32:42,620 1930476 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:32:42,620 1930476 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:32:42,621 1930477 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:32:42,621 1930477 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:32:42,622 1930478 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:32:42,622 1930478 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:32:42,623 1930479 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@15109cf,Image:0 2011-04-04 11:32:42,623 1930479 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@1b910b0,omero.model.OriginalFile:0 2011-04-04 11:32:42,624 1930480 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@124a4bc,Pixels:0 2011-04-04 11:32:42,624 1930480 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@11fc4dd,Channel:0:0 2011-04-04 11:32:42,625 1930481 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@9bcf06,Channel:0:1 2011-04-04 11:32:42,625 1930481 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@1e2e788,Channel:0:2 2011-04-04 11:32:42,625 1930481 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@e4b7d3,omero.model.FileAnnotation:0:0 2011-04-04 11:32:42,626 1930482 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@19eb5f6,omero.model.LogicalChannel:0:0 2011-04-04 11:32:42,626 1930482 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@12ba54f,omero.model.LogicalChannel:0:1 2011-04-04 11:32:42,627 1930483 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@1f0b146,omero.model.LogicalChannel:0:2 2011-04-04 11:32:42,627 1930483 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:32:42,628 1930484 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:32:42,628 1930484 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:753 2011-04-04 11:32:42,629 1930485 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:32:42,629 1930485 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:32:42,630 1930486 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:32:42,679 1930535 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7906 2011-04-04 11:32:42,691 1930547 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:32:42,699 1930555 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:32:43,006 1930862 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:32:43,269 1931125 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:32:43,534 1931390 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:32:43,535 1931391 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:32:44,007 1931863 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:32:44,008 1931864 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:32:44,178 1932034 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:32:44,179 1932035 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:32:44,184 1932040 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:32:44,573 1932429 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:32:55,597 1943453 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:32:55,599 1943455 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 001_1_001.ome - Copy (11).tif 2011-04-04 11:32:58,958 1946814 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.OMETiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (11).tif) 2011-04-04 11:32:58,958 1946814 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:32:58,986 1946842 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: OMETiff 2011-04-04 11:32:58,987 1946843 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: OMETiff 2011-04-04 11:32:58,989 1946845 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:32:58,992 1946848 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:32:58,995 1946851 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:32:58,999 1946855 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYZCT 2011-04-04 11:32:59,002 1946858 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:32:59,007 1946863 [2-thread-1] DEBUG loci.formats.FormatHandler - Image[0] { 2011-04-04 11:32:59,007 1946863 [2-thread-1] DEBUG loci.formats.FormatHandler - id = urn:lsid:export.openmicroscopy.org:Image:51c3a594-2ec4-449b-a9a9-cdfde6d51ecd_4578:31364 2011-04-04 11:32:59,007 1946863 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[0] { 2011-04-04 11:32:59,009 1946865 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[0]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (11).tif, IFD=0 2011-04-04 11:32:59,009 1946865 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: CLEARED 2011-04-04 11:32:59,009 1946865 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: CLEARED 2011-04-04 11:32:59,010 1946866 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:32:59,010 1946866 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[1] { 2011-04-04 11:32:59,010 1946866 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (11).tif, IFD=1 2011-04-04 11:32:59,010 1946866 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: CLEARED 2011-04-04 11:32:59,011 1946867 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:32:59,011 1946867 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[2] { 2011-04-04 11:32:59,011 1946867 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (11).tif, IFD=2 2011-04-04 11:32:59,011 1946867 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:32:59,011 1946867 [2-thread-1] DEBUG loci.formats.FormatHandler - -------------------------------- 2011-04-04 11:32:59,011 1946867 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[0]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (11).tif, IFD=0 2011-04-04 11:32:59,011 1946867 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (11).tif, IFD=1 2011-04-04 11:32:59,011 1946867 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (11).tif, IFD=2 2011-04-04 11:32:59,012 1946868 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:32:59,012 1946868 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:32:59,012 1946868 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:32:59,012 1946868 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:32:59,012 1946868 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:32:59,012 1946868 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:32:59,013 1946869 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:32:59,013 1946869 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:32:59,013 1946869 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:32:59,013 1946869 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:32:59,013 1946869 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:32:59,013 1946869 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:32:59,014 1946870 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:32:59,018 1946874 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.MinimalTiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (11).tif) 2011-04-04 11:32:59,021 1946877 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:32:59,075 1946931 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:32:59,080 1946936 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:32:59,080 1946936 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:32:59,080 1946936 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:32:59,080 1946936 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:32:59,080 1946936 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:32:59,080 1946936 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:32:59,081 1946937 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:32:59,081 1946937 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:32:59,081 1946937 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:32:59,081 1946937 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:32:59,081 1946937 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:32:59,086 1946942 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:32:59,090 1946946 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:32:59,093 1946949 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 001_1_001.ome - Copy (11).tif 2011-04-04 11:32:59,097 1946953 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:32:59,102 1946958 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:32:59,103 1946959 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:32:59,104 1946960 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:32:59,104 1946960 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:32:59,104 1946960 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:32:59,105 1946961 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 001_1_001.ome - Copy (11).tif 2011-04-04 11:32:59,105 1946961 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:32:59,106 1946962 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:32:59,106 1946962 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:32:59,107 1946963 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:32:59,107 1946963 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:32:59,108 1946964 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:32:59,109 1946965 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:32:59,109 1946965 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:32:59,110 1946966 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:32:59,110 1946966 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@1cdf523,Image:0 2011-04-04 11:32:59,111 1946967 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@7f59c7,omero.model.OriginalFile:0 2011-04-04 11:32:59,111 1946967 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@1a4f434,Pixels:0 2011-04-04 11:32:59,115 1946971 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@753711,Channel:0:0 2011-04-04 11:32:59,115 1946971 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@10984e0,Channel:0:1 2011-04-04 11:32:59,116 1946972 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@1a8859b,Channel:0:2 2011-04-04 11:32:59,116 1946972 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@2cd6c8,omero.model.FileAnnotation:0:0 2011-04-04 11:32:59,117 1946973 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1b67ae1,omero.model.LogicalChannel:0:0 2011-04-04 11:32:59,117 1946973 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@1833711,omero.model.LogicalChannel:0:1 2011-04-04 11:32:59,118 1946974 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@15b08c5,omero.model.LogicalChannel:0:2 2011-04-04 11:32:59,118 1946974 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:32:59,119 1946975 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:32:59,119 1946975 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:753 2011-04-04 11:32:59,120 1946976 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:32:59,120 1946976 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:32:59,120 1946976 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:32:59,171 1947027 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7907 2011-04-04 11:32:59,181 1947037 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:32:59,188 1947044 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:32:59,644 1947500 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:32:59,901 1947757 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:33:00,158 1948014 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:33:00,158 1948014 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:33:00,640 1948496 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:33:00,641 1948497 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:33:00,816 1948672 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:33:00,817 1948673 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:33:00,827 1948683 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:33:12,163 1960019 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:33:12,164 1960020 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 001_1_001.ome - Copy (12).tif 2011-04-04 11:33:15,291 1963147 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.OMETiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (12).tif) 2011-04-04 11:33:15,291 1963147 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:33:15,317 1963173 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: OMETiff 2011-04-04 11:33:15,318 1963174 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: OMETiff 2011-04-04 11:33:15,321 1963177 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:33:15,325 1963181 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:33:15,329 1963185 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:33:15,332 1963188 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYZCT 2011-04-04 11:33:15,336 1963192 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:33:15,340 1963196 [2-thread-1] DEBUG loci.formats.FormatHandler - Image[0] { 2011-04-04 11:33:15,340 1963196 [2-thread-1] DEBUG loci.formats.FormatHandler - id = urn:lsid:export.openmicroscopy.org:Image:51c3a594-2ec4-449b-a9a9-cdfde6d51ecd_4578:31364 2011-04-04 11:33:15,340 1963196 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[0] { 2011-04-04 11:33:15,341 1963197 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[0]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (12).tif, IFD=0 2011-04-04 11:33:15,341 1963197 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: CLEARED 2011-04-04 11:33:15,341 1963197 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: CLEARED 2011-04-04 11:33:15,341 1963197 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:33:15,341 1963197 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[1] { 2011-04-04 11:33:15,342 1963198 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (12).tif, IFD=1 2011-04-04 11:33:15,342 1963198 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: CLEARED 2011-04-04 11:33:15,342 1963198 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:33:15,342 1963198 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[2] { 2011-04-04 11:33:15,343 1963199 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (12).tif, IFD=2 2011-04-04 11:33:15,343 1963199 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:33:15,343 1963199 [2-thread-1] DEBUG loci.formats.FormatHandler - -------------------------------- 2011-04-04 11:33:15,343 1963199 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[0]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (12).tif, IFD=0 2011-04-04 11:33:15,343 1963199 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (12).tif, IFD=1 2011-04-04 11:33:15,343 1963199 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (12).tif, IFD=2 2011-04-04 11:33:15,343 1963199 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:33:15,344 1963200 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:33:15,344 1963200 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:33:15,344 1963200 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:33:15,344 1963200 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:33:15,344 1963200 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:33:15,345 1963201 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:33:15,345 1963201 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:33:15,345 1963201 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:33:15,345 1963201 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:33:15,345 1963201 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:33:15,346 1963202 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:33:15,346 1963202 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:33:15,347 1963203 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.MinimalTiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (12).tif) 2011-04-04 11:33:15,349 1963205 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:33:15,406 1963262 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:33:15,410 1963266 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:33:15,410 1963266 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:33:15,410 1963266 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:33:15,410 1963266 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:33:15,410 1963266 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:33:15,411 1963267 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:33:15,411 1963267 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:33:15,411 1963267 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:33:15,411 1963267 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:33:15,411 1963267 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:33:15,411 1963267 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:33:15,412 1963268 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:33:15,416 1963272 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:33:15,419 1963275 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 001_1_001.ome - Copy (12).tif 2011-04-04 11:33:15,420 1963276 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:33:15,426 1963282 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:33:15,430 1963286 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:33:15,430 1963286 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:33:15,431 1963287 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:33:15,431 1963287 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:33:15,431 1963287 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 001_1_001.ome - Copy (12).tif 2011-04-04 11:33:15,432 1963288 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:33:15,432 1963288 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:33:15,433 1963289 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:33:15,433 1963289 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:33:15,433 1963289 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:33:15,434 1963290 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:33:15,435 1963291 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:33:15,439 1963295 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:33:15,439 1963295 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:33:15,440 1963296 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@13223ad,Image:0 2011-04-04 11:33:15,440 1963296 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@d8b0f6,omero.model.OriginalFile:0 2011-04-04 11:33:15,440 1963296 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@1f19bbe,Pixels:0 2011-04-04 11:33:15,441 1963297 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@180948f,Channel:0:0 2011-04-04 11:33:15,441 1963297 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@17009d9,Channel:0:1 2011-04-04 11:33:15,442 1963298 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@b5f5f6,Channel:0:2 2011-04-04 11:33:15,442 1963298 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@1481cb6,omero.model.FileAnnotation:0:0 2011-04-04 11:33:15,442 1963298 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1547ec9,omero.model.LogicalChannel:0:0 2011-04-04 11:33:15,443 1963299 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@10bc479,omero.model.LogicalChannel:0:1 2011-04-04 11:33:15,443 1963299 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@85d2c,omero.model.LogicalChannel:0:2 2011-04-04 11:33:15,444 1963300 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:33:15,444 1963300 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:33:15,444 1963300 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:753 2011-04-04 11:33:15,445 1963301 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:33:15,445 1963301 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:33:15,445 1963301 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:33:15,490 1963346 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7908 2011-04-04 11:33:15,505 1963361 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:33:15,513 1963369 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:33:15,778 1963634 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:33:16,040 1963896 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:33:16,304 1964160 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:33:16,304 1964160 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:33:16,788 1964644 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:33:16,789 1964645 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:33:16,945 1964801 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:33:16,946 1964802 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:33:16,955 1964811 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:33:28,521 1976377 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:33:28,521 1976377 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 001_1_001.ome - Copy (13).tif 2011-04-04 11:33:31,710 1979566 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.OMETiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (13).tif) 2011-04-04 11:33:31,710 1979566 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:33:31,736 1979592 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: OMETiff 2011-04-04 11:33:31,737 1979593 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: OMETiff 2011-04-04 11:33:31,739 1979595 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:33:31,744 1979600 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:33:31,747 1979603 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:33:31,751 1979607 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYZCT 2011-04-04 11:33:31,754 1979610 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:33:31,759 1979615 [2-thread-1] DEBUG loci.formats.FormatHandler - Image[0] { 2011-04-04 11:33:31,759 1979615 [2-thread-1] DEBUG loci.formats.FormatHandler - id = urn:lsid:export.openmicroscopy.org:Image:51c3a594-2ec4-449b-a9a9-cdfde6d51ecd_4578:31364 2011-04-04 11:33:31,759 1979615 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[0] { 2011-04-04 11:33:31,760 1979616 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[0]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (13).tif, IFD=0 2011-04-04 11:33:31,760 1979616 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: CLEARED 2011-04-04 11:33:31,760 1979616 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: CLEARED 2011-04-04 11:33:31,760 1979616 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:33:31,760 1979616 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[1] { 2011-04-04 11:33:31,761 1979617 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (13).tif, IFD=1 2011-04-04 11:33:31,761 1979617 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: CLEARED 2011-04-04 11:33:31,761 1979617 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:33:31,761 1979617 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[2] { 2011-04-04 11:33:31,761 1979617 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (13).tif, IFD=2 2011-04-04 11:33:31,761 1979617 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:33:31,761 1979617 [2-thread-1] DEBUG loci.formats.FormatHandler - -------------------------------- 2011-04-04 11:33:31,761 1979617 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[0]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (13).tif, IFD=0 2011-04-04 11:33:31,762 1979618 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (13).tif, IFD=1 2011-04-04 11:33:31,762 1979618 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (13).tif, IFD=2 2011-04-04 11:33:31,762 1979618 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:33:31,762 1979618 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:33:31,762 1979618 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:33:31,762 1979618 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:33:31,762 1979618 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:33:31,762 1979618 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:33:31,763 1979619 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:33:31,763 1979619 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:33:31,763 1979619 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:33:31,763 1979619 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:33:31,763 1979619 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:33:31,764 1979620 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:33:31,764 1979620 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:33:31,772 1979628 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.MinimalTiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (13).tif) 2011-04-04 11:33:31,775 1979631 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:33:31,831 1979687 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:33:31,836 1979692 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:33:31,836 1979692 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:33:31,836 1979692 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:33:31,836 1979692 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:33:31,836 1979692 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:33:31,837 1979693 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:33:31,837 1979693 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:33:31,837 1979693 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:33:31,837 1979693 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:33:31,837 1979693 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:33:31,837 1979693 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:33:31,838 1979694 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:33:31,846 1979702 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:33:31,846 1979702 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 001_1_001.ome - Copy (13).tif 2011-04-04 11:33:31,855 1979711 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:33:31,861 1979717 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:33:31,864 1979720 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:33:31,865 1979721 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:33:31,865 1979721 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:33:31,866 1979722 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:33:31,866 1979722 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 001_1_001.ome - Copy (13).tif 2011-04-04 11:33:31,866 1979722 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:33:31,867 1979723 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:33:31,867 1979723 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:33:31,872 1979728 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:33:31,873 1979729 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:33:31,874 1979730 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:33:31,874 1979730 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:33:31,875 1979731 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:33:31,875 1979731 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:33:31,875 1979731 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@9789ee,Image:0 2011-04-04 11:33:31,876 1979732 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@ac8dff,omero.model.OriginalFile:0 2011-04-04 11:33:31,876 1979732 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@cff4eb,Pixels:0 2011-04-04 11:33:31,877 1979733 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@1c192b5,Channel:0:0 2011-04-04 11:33:31,878 1979734 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@bd81bf,Channel:0:1 2011-04-04 11:33:31,878 1979734 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@1ecab7c,Channel:0:2 2011-04-04 11:33:31,879 1979735 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@ab1d1b,omero.model.FileAnnotation:0:0 2011-04-04 11:33:31,879 1979735 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1c28a6a,omero.model.LogicalChannel:0:0 2011-04-04 11:33:31,880 1979736 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@1c24c1e,omero.model.LogicalChannel:0:1 2011-04-04 11:33:31,880 1979736 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@f09710,omero.model.LogicalChannel:0:2 2011-04-04 11:33:31,881 1979737 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:33:31,881 1979737 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:33:31,881 1979737 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:753 2011-04-04 11:33:31,882 1979738 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:33:31,883 1979739 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:33:31,883 1979739 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:33:31,934 1979790 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7909 2011-04-04 11:33:31,964 1979820 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:33:31,972 1979828 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:33:32,257 1980113 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:33:32,538 1980394 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:33:32,793 1980649 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:33:32,794 1980650 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:33:33,267 1981123 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:33:33,268 1981124 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:33:33,463 1981319 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:33:33,464 1981320 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:33:33,475 1981331 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:33:44,571 1992427 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:33:44,774 1992630 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:33:44,775 1992631 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 001_1_001.ome - Copy (14).tif 2011-04-04 11:33:48,149 1996005 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.OMETiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (14).tif) 2011-04-04 11:33:48,149 1996005 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:33:48,175 1996031 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: OMETiff 2011-04-04 11:33:48,181 1996037 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: OMETiff 2011-04-04 11:33:48,183 1996039 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:33:48,183 1996039 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:33:48,187 1996043 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:33:48,189 1996045 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYZCT 2011-04-04 11:33:48,192 1996048 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:33:48,197 1996053 [2-thread-1] DEBUG loci.formats.FormatHandler - Image[0] { 2011-04-04 11:33:48,197 1996053 [2-thread-1] DEBUG loci.formats.FormatHandler - id = urn:lsid:export.openmicroscopy.org:Image:51c3a594-2ec4-449b-a9a9-cdfde6d51ecd_4578:31364 2011-04-04 11:33:48,197 1996053 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[0] { 2011-04-04 11:33:48,198 1996054 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[0]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (14).tif, IFD=0 2011-04-04 11:33:48,198 1996054 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: CLEARED 2011-04-04 11:33:48,198 1996054 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: CLEARED 2011-04-04 11:33:48,198 1996054 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:33:48,198 1996054 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[1] { 2011-04-04 11:33:48,199 1996055 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (14).tif, IFD=1 2011-04-04 11:33:48,199 1996055 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: CLEARED 2011-04-04 11:33:48,199 1996055 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:33:48,199 1996055 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[2] { 2011-04-04 11:33:48,200 1996056 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (14).tif, IFD=2 2011-04-04 11:33:48,200 1996056 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:33:48,200 1996056 [2-thread-1] DEBUG loci.formats.FormatHandler - -------------------------------- 2011-04-04 11:33:48,200 1996056 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[0]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (14).tif, IFD=0 2011-04-04 11:33:48,200 1996056 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (14).tif, IFD=1 2011-04-04 11:33:48,200 1996056 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (14).tif, IFD=2 2011-04-04 11:33:48,200 1996056 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:33:48,201 1996057 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:33:48,201 1996057 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:33:48,202 1996058 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:33:48,202 1996058 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:33:48,202 1996058 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:33:48,202 1996058 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:33:48,202 1996058 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:33:48,202 1996058 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:33:48,202 1996058 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:33:48,202 1996058 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:33:48,202 1996058 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:33:48,203 1996059 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:33:48,207 1996063 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.MinimalTiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (14).tif) 2011-04-04 11:33:48,209 1996065 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:33:48,261 1996117 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:33:48,264 1996120 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:33:48,265 1996121 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:33:48,265 1996121 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:33:48,265 1996121 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:33:48,265 1996121 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:33:48,265 1996121 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:33:48,265 1996121 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:33:48,265 1996121 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:33:48,265 1996121 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:33:48,265 1996121 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:33:48,266 1996122 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:33:48,266 1996122 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:33:48,270 1996126 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:33:48,274 1996130 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 001_1_001.ome - Copy (14).tif 2011-04-04 11:33:48,277 1996133 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:33:48,282 1996138 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:33:48,283 1996139 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:33:48,284 1996140 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:33:48,284 1996140 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:33:48,284 1996140 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:33:48,285 1996141 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 001_1_001.ome - Copy (14).tif 2011-04-04 11:33:48,285 1996141 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:33:48,286 1996142 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:33:48,286 1996142 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:33:48,287 1996143 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:33:48,287 1996143 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:33:48,288 1996144 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:33:48,289 1996145 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:33:48,289 1996145 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:33:48,290 1996146 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:33:48,290 1996146 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@dbe837,Image:0 2011-04-04 11:33:48,290 1996146 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@1b831da,omero.model.OriginalFile:0 2011-04-04 11:33:48,291 1996147 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@11a0883,Pixels:0 2011-04-04 11:33:48,291 1996147 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@1aa7971,Channel:0:0 2011-04-04 11:33:48,292 1996148 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@ba9d04,Channel:0:1 2011-04-04 11:33:48,296 1996152 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@1d8a2c5,Channel:0:2 2011-04-04 11:33:48,297 1996153 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@fb42,omero.model.FileAnnotation:0:0 2011-04-04 11:33:48,297 1996153 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1a64a63,omero.model.LogicalChannel:0:0 2011-04-04 11:33:48,298 1996154 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@1a28d31,omero.model.LogicalChannel:0:1 2011-04-04 11:33:48,298 1996154 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@14bdaaa,omero.model.LogicalChannel:0:2 2011-04-04 11:33:48,299 1996155 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:33:48,299 1996155 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:33:48,300 1996156 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:753 2011-04-04 11:33:48,300 1996156 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:33:48,300 1996156 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:33:48,301 1996157 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:33:48,346 1996202 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7910 2011-04-04 11:33:48,364 1996220 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:33:48,372 1996228 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:33:48,642 1996498 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:33:48,899 1996755 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:33:49,164 1997020 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:33:49,164 1997020 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:33:49,654 1997510 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:33:49,655 1997511 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:33:49,848 1997704 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:33:49,849 1997705 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:33:49,853 1997709 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:34:01,422 2009278 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:34:01,423 2009279 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 001_1_001.ome - Copy (15).tif 2011-04-04 11:34:04,867 2012723 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.OMETiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (15).tif) 2011-04-04 11:34:04,867 2012723 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:34:04,894 2012750 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: OMETiff 2011-04-04 11:34:04,896 2012752 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: OMETiff 2011-04-04 11:34:04,898 2012754 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:34:04,901 2012757 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:34:04,904 2012760 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:34:04,907 2012763 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYZCT 2011-04-04 11:34:04,910 2012766 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:34:04,914 2012770 [2-thread-1] DEBUG loci.formats.FormatHandler - Image[0] { 2011-04-04 11:34:04,914 2012770 [2-thread-1] DEBUG loci.formats.FormatHandler - id = urn:lsid:export.openmicroscopy.org:Image:51c3a594-2ec4-449b-a9a9-cdfde6d51ecd_4578:31364 2011-04-04 11:34:04,914 2012770 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[0] { 2011-04-04 11:34:04,915 2012771 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[0]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (15).tif, IFD=0 2011-04-04 11:34:04,915 2012771 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: CLEARED 2011-04-04 11:34:04,915 2012771 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: CLEARED 2011-04-04 11:34:04,915 2012771 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:34:04,915 2012771 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[1] { 2011-04-04 11:34:04,916 2012772 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (15).tif, IFD=1 2011-04-04 11:34:04,916 2012772 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: CLEARED 2011-04-04 11:34:04,916 2012772 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:34:04,916 2012772 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[2] { 2011-04-04 11:34:04,917 2012773 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (15).tif, IFD=2 2011-04-04 11:34:04,917 2012773 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:34:04,917 2012773 [2-thread-1] DEBUG loci.formats.FormatHandler - -------------------------------- 2011-04-04 11:34:04,917 2012773 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[0]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (15).tif, IFD=0 2011-04-04 11:34:04,917 2012773 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (15).tif, IFD=1 2011-04-04 11:34:04,917 2012773 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (15).tif, IFD=2 2011-04-04 11:34:04,917 2012773 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:34:04,918 2012774 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:34:04,918 2012774 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:34:04,918 2012774 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:34:04,918 2012774 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:34:04,918 2012774 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:34:04,918 2012774 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:34:04,918 2012774 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:34:04,919 2012775 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:34:04,919 2012775 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:34:04,919 2012775 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:34:04,919 2012775 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:34:04,920 2012776 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:34:04,926 2012782 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.MinimalTiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (15).tif) 2011-04-04 11:34:04,928 2012784 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:34:04,980 2012836 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:34:04,984 2012840 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:34:04,984 2012840 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:34:04,984 2012840 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:34:04,984 2012840 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:34:04,984 2012840 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:34:04,985 2012841 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:34:04,985 2012841 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:34:04,985 2012841 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:34:04,985 2012841 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:34:04,985 2012841 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:34:04,985 2012841 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:34:04,986 2012842 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:34:04,989 2012845 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:34:04,992 2012848 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 001_1_001.ome - Copy (15).tif 2011-04-04 11:34:04,996 2012852 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:34:05,001 2012857 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:34:05,002 2012858 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:34:05,002 2012858 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:34:05,003 2012859 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:34:05,003 2012859 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:34:05,003 2012859 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 001_1_001.ome - Copy (15).tif 2011-04-04 11:34:05,004 2012860 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:34:05,004 2012860 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:34:05,005 2012861 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:34:05,009 2012865 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:34:05,009 2012865 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:34:05,010 2012866 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:34:05,010 2012866 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:34:05,011 2012867 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:34:05,011 2012867 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:34:05,012 2012868 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@85d240,Image:0 2011-04-04 11:34:05,012 2012868 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@10676f3,omero.model.OriginalFile:0 2011-04-04 11:34:05,012 2012868 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@1b8ac61,Pixels:0 2011-04-04 11:34:05,013 2012869 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@44cf16,Channel:0:0 2011-04-04 11:34:05,013 2012869 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@46c14f,Channel:0:1 2011-04-04 11:34:05,014 2012870 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@1c42a9,Channel:0:2 2011-04-04 11:34:05,014 2012870 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@40e825,omero.model.FileAnnotation:0:0 2011-04-04 11:34:05,014 2012870 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@80e4ee,omero.model.LogicalChannel:0:0 2011-04-04 11:34:05,015 2012871 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@3a6465,omero.model.LogicalChannel:0:1 2011-04-04 11:34:05,015 2012871 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@61d517,omero.model.LogicalChannel:0:2 2011-04-04 11:34:05,016 2012872 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:34:05,016 2012872 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:34:05,016 2012872 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:753 2011-04-04 11:34:05,017 2012873 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:34:05,017 2012873 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:34:05,018 2012874 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:34:05,075 2012931 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7911 2011-04-04 11:34:05,076 2012932 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:34:05,086 2012942 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:34:05,364 2013220 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:34:05,642 2013498 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:34:05,897 2013753 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:34:05,898 2013754 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:34:06,373 2014229 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:34:06,374 2014230 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:34:06,530 2014386 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:34:06,531 2014387 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:34:06,538 2014394 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:34:17,838 2025694 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:34:17,839 2025695 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 001_1_001.ome - Copy (16).tif 2011-04-04 11:34:21,072 2028928 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.OMETiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (16).tif) 2011-04-04 11:34:21,072 2028928 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:34:21,100 2028956 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: OMETiff 2011-04-04 11:34:21,101 2028957 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: OMETiff 2011-04-04 11:34:21,112 2028968 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:34:21,112 2028968 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:34:21,123 2028979 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:34:21,124 2028980 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYZCT 2011-04-04 11:34:21,128 2028984 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:34:21,132 2028988 [2-thread-1] DEBUG loci.formats.FormatHandler - Image[0] { 2011-04-04 11:34:21,132 2028988 [2-thread-1] DEBUG loci.formats.FormatHandler - id = urn:lsid:export.openmicroscopy.org:Image:51c3a594-2ec4-449b-a9a9-cdfde6d51ecd_4578:31364 2011-04-04 11:34:21,132 2028988 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[0] { 2011-04-04 11:34:21,133 2028989 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[0]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (16).tif, IFD=0 2011-04-04 11:34:21,133 2028989 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: CLEARED 2011-04-04 11:34:21,133 2028989 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: CLEARED 2011-04-04 11:34:21,133 2028989 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:34:21,133 2028989 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[1] { 2011-04-04 11:34:21,134 2028990 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (16).tif, IFD=1 2011-04-04 11:34:21,134 2028990 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: CLEARED 2011-04-04 11:34:21,134 2028990 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:34:21,134 2028990 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[2] { 2011-04-04 11:34:21,135 2028991 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (16).tif, IFD=2 2011-04-04 11:34:21,135 2028991 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:34:21,135 2028991 [2-thread-1] DEBUG loci.formats.FormatHandler - -------------------------------- 2011-04-04 11:34:21,135 2028991 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[0]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (16).tif, IFD=0 2011-04-04 11:34:21,135 2028991 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (16).tif, IFD=1 2011-04-04 11:34:21,135 2028991 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (16).tif, IFD=2 2011-04-04 11:34:21,135 2028991 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:34:21,136 2028992 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:34:21,136 2028992 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:34:21,136 2028992 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:34:21,137 2028993 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:34:21,137 2028993 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:34:21,137 2028993 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:34:21,137 2028993 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:34:21,137 2028993 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:34:21,138 2028994 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:34:21,138 2028994 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:34:21,138 2028994 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:34:21,138 2028994 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:34:21,142 2028998 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.MinimalTiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (16).tif) 2011-04-04 11:34:21,145 2029001 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:34:21,248 2029104 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:34:21,252 2029108 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:34:21,253 2029109 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:34:21,253 2029109 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:34:21,253 2029109 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:34:21,253 2029109 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:34:21,253 2029109 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:34:21,253 2029109 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:34:21,254 2029110 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:34:21,254 2029110 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:34:21,254 2029110 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:34:21,254 2029110 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:34:21,255 2029111 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:34:21,259 2029115 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:34:21,264 2029120 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 001_1_001.ome - Copy (16).tif 2011-04-04 11:34:21,269 2029125 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:34:21,275 2029131 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:34:21,275 2029131 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:34:21,276 2029132 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:34:21,277 2029133 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:34:21,278 2029134 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:34:21,279 2029135 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 001_1_001.ome - Copy (16).tif 2011-04-04 11:34:21,279 2029135 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:34:21,280 2029136 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:34:21,280 2029136 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:34:21,281 2029137 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:34:21,290 2029146 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:34:21,291 2029147 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:34:21,292 2029148 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:34:21,292 2029148 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:34:21,293 2029149 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:34:21,293 2029149 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@16d549e,Image:0 2011-04-04 11:34:21,294 2029150 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@1697ff2,omero.model.OriginalFile:0 2011-04-04 11:34:21,295 2029151 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@15de95f,Pixels:0 2011-04-04 11:34:21,296 2029152 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@18f1c22,Channel:0:0 2011-04-04 11:34:21,297 2029153 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@1fbd4eb,Channel:0:1 2011-04-04 11:34:21,297 2029153 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@c155dd,Channel:0:2 2011-04-04 11:34:21,298 2029154 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@4c885c,omero.model.FileAnnotation:0:0 2011-04-04 11:34:21,298 2029154 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@339dd9,omero.model.LogicalChannel:0:0 2011-04-04 11:34:21,299 2029155 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@25adb1,omero.model.LogicalChannel:0:1 2011-04-04 11:34:21,299 2029155 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@a433d8,omero.model.LogicalChannel:0:2 2011-04-04 11:34:21,300 2029156 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:34:21,300 2029156 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:34:21,301 2029157 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:753 2011-04-04 11:34:21,301 2029157 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:34:21,301 2029157 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:34:21,302 2029158 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:34:21,354 2029210 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7912 2011-04-04 11:34:21,360 2029216 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:34:21,367 2029223 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:34:21,637 2029493 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:34:22,226 2030082 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:34:22,625 2030481 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:34:22,626 2030482 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:34:23,099 2030955 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:34:23,100 2030956 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:34:23,252 2031108 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:34:23,255 2031111 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:34:23,263 2031119 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:34:34,849 2042705 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:34:34,852 2042708 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 001_1_001.ome - Copy (17).tif 2011-04-04 11:34:38,115 2045971 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.OMETiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (17).tif) 2011-04-04 11:34:38,115 2045971 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:34:38,141 2045997 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: OMETiff 2011-04-04 11:34:38,142 2045998 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: OMETiff 2011-04-04 11:34:38,145 2046001 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:34:38,149 2046005 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:34:38,152 2046008 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:34:38,156 2046012 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYZCT 2011-04-04 11:34:38,157 2046013 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:34:38,159 2046015 [2-thread-1] DEBUG loci.formats.FormatHandler - Image[0] { 2011-04-04 11:34:38,159 2046015 [2-thread-1] DEBUG loci.formats.FormatHandler - id = urn:lsid:export.openmicroscopy.org:Image:51c3a594-2ec4-449b-a9a9-cdfde6d51ecd_4578:31364 2011-04-04 11:34:38,159 2046015 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[0] { 2011-04-04 11:34:38,160 2046016 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[0]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (17).tif, IFD=0 2011-04-04 11:34:38,160 2046016 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: CLEARED 2011-04-04 11:34:38,160 2046016 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: CLEARED 2011-04-04 11:34:38,160 2046016 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:34:38,160 2046016 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[1] { 2011-04-04 11:34:38,161 2046017 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (17).tif, IFD=1 2011-04-04 11:34:38,161 2046017 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: CLEARED 2011-04-04 11:34:38,161 2046017 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:34:38,161 2046017 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[2] { 2011-04-04 11:34:38,162 2046018 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (17).tif, IFD=2 2011-04-04 11:34:38,162 2046018 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:34:38,162 2046018 [2-thread-1] DEBUG loci.formats.FormatHandler - -------------------------------- 2011-04-04 11:34:38,162 2046018 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[0]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (17).tif, IFD=0 2011-04-04 11:34:38,162 2046018 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (17).tif, IFD=1 2011-04-04 11:34:38,162 2046018 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (17).tif, IFD=2 2011-04-04 11:34:38,162 2046018 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:34:38,162 2046018 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:34:38,162 2046018 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:34:38,162 2046018 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:34:38,162 2046018 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:34:38,162 2046018 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:34:38,163 2046019 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:34:38,163 2046019 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:34:38,163 2046019 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:34:38,163 2046019 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:34:38,163 2046019 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:34:38,163 2046019 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:34:38,166 2046022 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:34:38,170 2046026 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.MinimalTiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (17).tif) 2011-04-04 11:34:38,172 2046028 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:34:38,225 2046081 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:34:38,229 2046085 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:34:38,229 2046085 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:34:38,229 2046085 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:34:38,229 2046085 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:34:38,229 2046085 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:34:38,230 2046086 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:34:38,230 2046086 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:34:38,230 2046086 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:34:38,230 2046086 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:34:38,230 2046086 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:34:38,230 2046086 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:34:38,231 2046087 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:34:38,235 2046091 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:34:38,238 2046094 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 001_1_001.ome - Copy (17).tif 2011-04-04 11:34:38,242 2046098 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:34:38,247 2046103 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:34:38,248 2046104 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:34:38,249 2046105 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:34:38,249 2046105 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:34:38,249 2046105 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:34:38,250 2046106 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 001_1_001.ome - Copy (17).tif 2011-04-04 11:34:38,250 2046106 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:34:38,251 2046107 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:34:38,251 2046107 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:34:38,252 2046108 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:34:38,252 2046108 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:34:38,258 2046114 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:34:38,258 2046114 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:34:38,259 2046115 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:34:38,259 2046115 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:34:38,260 2046116 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@e34d01,Image:0 2011-04-04 11:34:38,260 2046116 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@965fb9,omero.model.OriginalFile:0 2011-04-04 11:34:38,261 2046117 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@8cb0d2,Pixels:0 2011-04-04 11:34:38,261 2046117 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@1049065,Channel:0:0 2011-04-04 11:34:38,261 2046117 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@10bfee3,Channel:0:1 2011-04-04 11:34:38,262 2046118 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@fd05c7,Channel:0:2 2011-04-04 11:34:38,262 2046118 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@8fb08f,omero.model.FileAnnotation:0:0 2011-04-04 11:34:38,263 2046119 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1b98b20,omero.model.LogicalChannel:0:0 2011-04-04 11:34:38,263 2046119 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@1101fa5,omero.model.LogicalChannel:0:1 2011-04-04 11:34:38,264 2046120 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@177f4ea,omero.model.LogicalChannel:0:2 2011-04-04 11:34:38,264 2046120 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:34:38,264 2046120 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:34:38,266 2046122 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:753 2011-04-04 11:34:38,266 2046122 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:34:38,267 2046123 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:34:38,267 2046123 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:34:38,322 2046178 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7913 2011-04-04 11:34:38,323 2046179 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:34:38,333 2046189 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:34:38,608 2046464 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:34:38,894 2046750 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:34:39,157 2047013 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:34:39,166 2047022 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:34:39,692 2047548 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:34:39,693 2047549 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:34:39,866 2047722 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:34:39,867 2047723 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:34:39,876 2047732 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:34:44,644 2052500 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:34:51,345 2059201 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:34:51,347 2059203 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 001_1_001.ome - Copy (18).tif 2011-04-04 11:34:54,518 2062374 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.OMETiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (18).tif) 2011-04-04 11:34:54,518 2062374 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:34:54,543 2062399 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: OMETiff 2011-04-04 11:34:54,544 2062400 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: OMETiff 2011-04-04 11:34:54,547 2062403 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:34:54,550 2062406 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:34:54,553 2062409 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:34:54,557 2062413 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYZCT 2011-04-04 11:34:54,560 2062416 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:34:54,565 2062421 [2-thread-1] DEBUG loci.formats.FormatHandler - Image[0] { 2011-04-04 11:34:54,565 2062421 [2-thread-1] DEBUG loci.formats.FormatHandler - id = urn:lsid:export.openmicroscopy.org:Image:51c3a594-2ec4-449b-a9a9-cdfde6d51ecd_4578:31364 2011-04-04 11:34:54,565 2062421 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[0] { 2011-04-04 11:34:54,566 2062422 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[0]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (18).tif, IFD=0 2011-04-04 11:34:54,566 2062422 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: CLEARED 2011-04-04 11:34:54,566 2062422 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: CLEARED 2011-04-04 11:34:54,566 2062422 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:34:54,566 2062422 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[1] { 2011-04-04 11:34:54,566 2062422 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (18).tif, IFD=1 2011-04-04 11:34:54,567 2062423 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: CLEARED 2011-04-04 11:34:54,567 2062423 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:34:54,567 2062423 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[2] { 2011-04-04 11:34:54,567 2062423 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (18).tif, IFD=2 2011-04-04 11:34:54,567 2062423 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:34:54,568 2062424 [2-thread-1] DEBUG loci.formats.FormatHandler - -------------------------------- 2011-04-04 11:34:54,568 2062424 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[0]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (18).tif, IFD=0 2011-04-04 11:34:54,568 2062424 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (18).tif, IFD=1 2011-04-04 11:34:54,568 2062424 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (18).tif, IFD=2 2011-04-04 11:34:54,568 2062424 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:34:54,569 2062425 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:34:54,569 2062425 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:34:54,569 2062425 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:34:54,569 2062425 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:34:54,569 2062425 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:34:54,569 2062425 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:34:54,569 2062425 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:34:54,570 2062426 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:34:54,570 2062426 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:34:54,570 2062426 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:34:54,570 2062426 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:34:54,571 2062427 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:34:54,574 2062430 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.MinimalTiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (18).tif) 2011-04-04 11:34:54,577 2062433 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:34:54,630 2062486 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:34:54,634 2062490 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:34:54,634 2062490 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:34:54,634 2062490 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:34:54,634 2062490 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:34:54,634 2062490 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:34:54,634 2062490 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:34:54,635 2062491 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:34:54,635 2062491 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:34:54,635 2062491 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:34:54,635 2062491 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:34:54,635 2062491 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:34:54,636 2062492 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:34:54,639 2062495 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:34:54,643 2062499 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 001_1_001.ome - Copy (18).tif 2011-04-04 11:34:54,652 2062508 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:34:54,655 2062511 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:34:54,680 2062536 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:34:54,681 2062537 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:34:54,681 2062537 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:34:54,683 2062539 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:34:54,684 2062540 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 001_1_001.ome - Copy (18).tif 2011-04-04 11:34:54,684 2062540 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:34:54,685 2062541 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:34:54,685 2062541 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:34:54,686 2062542 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:34:54,686 2062542 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:34:54,687 2062543 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:34:54,688 2062544 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:34:54,688 2062544 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:34:54,689 2062545 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:34:54,689 2062545 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@bb013f,Image:0 2011-04-04 11:34:54,689 2062545 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@ee79e5,omero.model.OriginalFile:0 2011-04-04 11:34:54,690 2062546 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@109babc,Pixels:0 2011-04-04 11:34:54,694 2062550 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@1dc516f,Channel:0:0 2011-04-04 11:34:54,694 2062550 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@1f1740f,Channel:0:1 2011-04-04 11:34:54,695 2062551 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@1651733,Channel:0:2 2011-04-04 11:34:54,695 2062551 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@8ce6aa,omero.model.FileAnnotation:0:0 2011-04-04 11:34:54,696 2062552 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@3e5dbe,omero.model.LogicalChannel:0:0 2011-04-04 11:34:54,696 2062552 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@16261fc,omero.model.LogicalChannel:0:1 2011-04-04 11:34:54,697 2062553 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@1dd1bd6,omero.model.LogicalChannel:0:2 2011-04-04 11:34:54,697 2062553 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:34:54,698 2062554 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:34:54,698 2062554 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:753 2011-04-04 11:34:54,699 2062555 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:34:54,699 2062555 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:34:54,700 2062556 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:34:54,745 2062601 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7914 2011-04-04 11:34:54,749 2062605 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:34:54,756 2062612 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:34:55,030 2062886 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:34:55,318 2063174 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:34:55,586 2063442 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:34:55,587 2063443 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:34:56,058 2063914 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:34:56,059 2063915 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:34:56,213 2064069 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:34:56,214 2064070 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:34:56,224 2064080 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:35:07,814 2075670 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:35:07,815 2075671 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 001_1_001.ome - Copy (19).tif 2011-04-04 11:35:11,283 2079139 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.OMETiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (19).tif) 2011-04-04 11:35:11,283 2079139 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:35:11,311 2079167 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: OMETiff 2011-04-04 11:35:11,312 2079168 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: OMETiff 2011-04-04 11:35:11,315 2079171 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:35:11,318 2079174 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:35:11,321 2079177 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:35:11,325 2079181 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYZCT 2011-04-04 11:35:11,329 2079185 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:35:11,330 2079186 [2-thread-1] DEBUG loci.formats.FormatHandler - Image[0] { 2011-04-04 11:35:11,330 2079186 [2-thread-1] DEBUG loci.formats.FormatHandler - id = urn:lsid:export.openmicroscopy.org:Image:51c3a594-2ec4-449b-a9a9-cdfde6d51ecd_4578:31364 2011-04-04 11:35:11,331 2079187 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[0] { 2011-04-04 11:35:11,331 2079187 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[0]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (19).tif, IFD=0 2011-04-04 11:35:11,331 2079187 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: CLEARED 2011-04-04 11:35:11,331 2079187 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: CLEARED 2011-04-04 11:35:11,331 2079187 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:35:11,331 2079187 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[1] { 2011-04-04 11:35:11,332 2079188 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (19).tif, IFD=1 2011-04-04 11:35:11,332 2079188 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: CLEARED 2011-04-04 11:35:11,332 2079188 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:35:11,332 2079188 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[2] { 2011-04-04 11:35:11,333 2079189 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (19).tif, IFD=2 2011-04-04 11:35:11,333 2079189 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:35:11,333 2079189 [2-thread-1] DEBUG loci.formats.FormatHandler - -------------------------------- 2011-04-04 11:35:11,333 2079189 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[0]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (19).tif, IFD=0 2011-04-04 11:35:11,333 2079189 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (19).tif, IFD=1 2011-04-04 11:35:11,333 2079189 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (19).tif, IFD=2 2011-04-04 11:35:11,333 2079189 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:35:11,334 2079190 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:35:11,334 2079190 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:35:11,334 2079190 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:35:11,334 2079190 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:35:11,334 2079190 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:35:11,334 2079190 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:35:11,334 2079190 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:35:11,334 2079190 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:35:11,335 2079191 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:35:11,335 2079191 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:35:11,335 2079191 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:35:11,335 2079191 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:35:11,336 2079192 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.MinimalTiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (19).tif) 2011-04-04 11:35:11,339 2079195 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:35:11,398 2079254 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:35:11,401 2079257 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:35:11,402 2079258 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:35:11,402 2079258 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:35:11,402 2079258 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:35:11,402 2079258 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:35:11,402 2079258 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:35:11,402 2079258 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:35:11,402 2079258 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:35:11,402 2079258 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:35:11,402 2079258 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:35:11,403 2079259 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:35:11,410 2079266 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:35:11,418 2079274 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:35:11,425 2079281 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 001_1_001.ome - Copy (19).tif 2011-04-04 11:35:11,478 2079334 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:35:11,482 2079338 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:35:11,482 2079338 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:35:11,483 2079339 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:35:11,483 2079339 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:35:11,483 2079339 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:35:11,484 2079340 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 001_1_001.ome - Copy (19).tif 2011-04-04 11:35:11,484 2079340 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:35:11,485 2079341 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:35:11,486 2079342 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:35:11,486 2079342 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:35:11,486 2079342 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:35:11,487 2079343 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:35:11,487 2079343 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:35:11,488 2079344 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:35:11,488 2079344 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:35:11,489 2079345 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@4d61c2,Image:0 2011-04-04 11:35:11,489 2079345 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@fecda0,omero.model.OriginalFile:0 2011-04-04 11:35:11,490 2079346 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@1c2dbc2,Pixels:0 2011-04-04 11:35:11,490 2079346 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@1f2e04c,Channel:0:0 2011-04-04 11:35:11,491 2079347 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@1d41410,Channel:0:1 2011-04-04 11:35:11,492 2079348 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@7e24df,Channel:0:2 2011-04-04 11:35:11,492 2079348 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@195d3aa,omero.model.FileAnnotation:0:0 2011-04-04 11:35:11,493 2079349 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@515bb7,omero.model.LogicalChannel:0:0 2011-04-04 11:35:11,494 2079350 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@148530a,omero.model.LogicalChannel:0:1 2011-04-04 11:35:11,494 2079350 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@450ebf,omero.model.LogicalChannel:0:2 2011-04-04 11:35:11,495 2079351 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:35:11,495 2079351 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:35:11,496 2079352 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:753 2011-04-04 11:35:11,496 2079352 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:35:11,497 2079353 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:35:11,497 2079353 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:35:11,542 2079398 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7915 2011-04-04 11:35:11,542 2079398 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:35:11,549 2079405 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:35:11,852 2079708 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:35:12,131 2079987 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:35:12,414 2080270 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:35:12,415 2080271 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:35:12,897 2080753 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:35:12,898 2080754 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:35:13,041 2080897 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:35:13,042 2080898 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:35:13,049 2080905 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:35:24,451 2092307 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:35:24,452 2092308 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 001_1_001.ome - Copy (2).tif 2011-04-04 11:35:27,597 2095453 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.OMETiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (2).tif) 2011-04-04 11:35:27,597 2095453 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:35:27,622 2095478 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: OMETiff 2011-04-04 11:35:27,623 2095479 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: OMETiff 2011-04-04 11:35:27,627 2095483 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:35:27,631 2095487 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:35:27,634 2095490 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:35:27,638 2095494 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYZCT 2011-04-04 11:35:27,642 2095498 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:35:27,647 2095503 [2-thread-1] DEBUG loci.formats.FormatHandler - Image[0] { 2011-04-04 11:35:27,647 2095503 [2-thread-1] DEBUG loci.formats.FormatHandler - id = urn:lsid:export.openmicroscopy.org:Image:51c3a594-2ec4-449b-a9a9-cdfde6d51ecd_4578:31364 2011-04-04 11:35:27,647 2095503 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[0] { 2011-04-04 11:35:27,648 2095504 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[0]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (2).tif, IFD=0 2011-04-04 11:35:27,648 2095504 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: CLEARED 2011-04-04 11:35:27,648 2095504 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: CLEARED 2011-04-04 11:35:27,648 2095504 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:35:27,648 2095504 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[1] { 2011-04-04 11:35:27,648 2095504 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (2).tif, IFD=1 2011-04-04 11:35:27,648 2095504 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: CLEARED 2011-04-04 11:35:27,648 2095504 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:35:27,649 2095505 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[2] { 2011-04-04 11:35:27,649 2095505 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (2).tif, IFD=2 2011-04-04 11:35:27,649 2095505 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:35:27,649 2095505 [2-thread-1] DEBUG loci.formats.FormatHandler - -------------------------------- 2011-04-04 11:35:27,649 2095505 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[0]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (2).tif, IFD=0 2011-04-04 11:35:27,649 2095505 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (2).tif, IFD=1 2011-04-04 11:35:27,649 2095505 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (2).tif, IFD=2 2011-04-04 11:35:27,649 2095505 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:35:27,651 2095507 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:35:27,651 2095507 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:35:27,651 2095507 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:35:27,651 2095507 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:35:27,651 2095507 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:35:27,651 2095507 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:35:27,651 2095507 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:35:27,652 2095508 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:35:27,652 2095508 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:35:27,652 2095508 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:35:27,652 2095508 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:35:27,652 2095508 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:35:27,656 2095512 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.MinimalTiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (2).tif) 2011-04-04 11:35:27,658 2095514 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:35:27,713 2095569 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:35:27,719 2095575 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:35:27,719 2095575 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:35:27,719 2095575 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:35:27,719 2095575 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:35:27,719 2095575 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:35:27,719 2095575 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:35:27,719 2095575 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:35:27,720 2095576 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:35:27,720 2095576 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:35:27,720 2095576 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:35:27,720 2095576 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:35:27,730 2095586 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:35:27,734 2095590 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:35:27,738 2095594 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 001_1_001.ome - Copy (2).tif 2011-04-04 11:35:27,745 2095601 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:35:27,747 2095603 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:35:27,772 2095628 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:35:27,773 2095629 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:35:27,773 2095629 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:35:27,774 2095630 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:35:27,775 2095631 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 001_1_001.ome - Copy (2).tif 2011-04-04 11:35:27,775 2095631 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:35:27,776 2095632 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:35:27,777 2095633 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:35:27,778 2095634 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:35:27,779 2095635 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:35:27,779 2095635 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:35:27,780 2095636 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:35:27,780 2095636 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:35:27,781 2095637 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:35:27,781 2095637 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@1be1e0f,Image:0 2011-04-04 11:35:27,782 2095638 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@15737ca,omero.model.OriginalFile:0 2011-04-04 11:35:27,782 2095638 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@10afa7d,Pixels:0 2011-04-04 11:35:27,783 2095639 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@1225d4a,Channel:0:0 2011-04-04 11:35:27,783 2095639 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@1c0edb7,Channel:0:1 2011-04-04 11:35:27,784 2095640 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@10e0623,Channel:0:2 2011-04-04 11:35:27,784 2095640 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@1abb00a,omero.model.FileAnnotation:0:0 2011-04-04 11:35:27,785 2095641 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@16d8ba,omero.model.LogicalChannel:0:0 2011-04-04 11:35:27,785 2095641 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@1af41f4,omero.model.LogicalChannel:0:1 2011-04-04 11:35:27,789 2095645 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@f5ba2c,omero.model.LogicalChannel:0:2 2011-04-04 11:35:27,789 2095645 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:35:27,789 2095645 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:35:27,790 2095646 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:753 2011-04-04 11:35:27,790 2095646 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:35:27,791 2095647 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:35:27,791 2095647 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:35:27,838 2095694 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7916 2011-04-04 11:35:27,855 2095711 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:35:27,864 2095720 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:35:28,130 2095986 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:35:28,391 2096247 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:35:28,653 2096509 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:35:28,654 2096510 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:35:29,140 2096996 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:35:29,141 2096997 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:35:29,303 2097159 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:35:29,304 2097160 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:35:29,314 2097170 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:35:40,879 2108735 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:35:40,879 2108735 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 001_1_001.ome - Copy (20).tif 2011-04-04 11:35:44,373 2112229 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.OMETiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (20).tif) 2011-04-04 11:35:44,374 2112230 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:35:44,397 2112253 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: OMETiff 2011-04-04 11:35:44,398 2112254 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: OMETiff 2011-04-04 11:35:44,401 2112257 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:35:44,404 2112260 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:35:44,407 2112263 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:35:44,411 2112267 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYZCT 2011-04-04 11:35:44,414 2112270 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:35:44,419 2112275 [2-thread-1] DEBUG loci.formats.FormatHandler - Image[0] { 2011-04-04 11:35:44,420 2112276 [2-thread-1] DEBUG loci.formats.FormatHandler - id = urn:lsid:export.openmicroscopy.org:Image:51c3a594-2ec4-449b-a9a9-cdfde6d51ecd_4578:31364 2011-04-04 11:35:44,420 2112276 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[0] { 2011-04-04 11:35:44,420 2112276 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[0]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (20).tif, IFD=0 2011-04-04 11:35:44,420 2112276 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: CLEARED 2011-04-04 11:35:44,420 2112276 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: CLEARED 2011-04-04 11:35:44,420 2112276 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:35:44,420 2112276 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[1] { 2011-04-04 11:35:44,421 2112277 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (20).tif, IFD=1 2011-04-04 11:35:44,421 2112277 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: CLEARED 2011-04-04 11:35:44,421 2112277 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:35:44,421 2112277 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[2] { 2011-04-04 11:35:44,422 2112278 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (20).tif, IFD=2 2011-04-04 11:35:44,422 2112278 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:35:44,422 2112278 [2-thread-1] DEBUG loci.formats.FormatHandler - -------------------------------- 2011-04-04 11:35:44,422 2112278 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[0]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (20).tif, IFD=0 2011-04-04 11:35:44,422 2112278 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (20).tif, IFD=1 2011-04-04 11:35:44,422 2112278 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (20).tif, IFD=2 2011-04-04 11:35:44,422 2112278 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:35:44,423 2112279 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:35:44,423 2112279 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:35:44,423 2112279 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:35:44,423 2112279 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:35:44,423 2112279 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:35:44,423 2112279 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:35:44,423 2112279 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:35:44,424 2112280 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:35:44,424 2112280 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:35:44,424 2112280 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:35:44,424 2112280 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:35:44,425 2112281 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:35:44,429 2112285 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.MinimalTiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (20).tif) 2011-04-04 11:35:44,431 2112287 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:35:44,484 2112340 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:35:44,488 2112344 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:35:44,488 2112344 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:35:44,488 2112344 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:35:44,488 2112344 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:35:44,488 2112344 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:35:44,488 2112344 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:35:44,488 2112344 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:35:44,488 2112344 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:35:44,488 2112344 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:35:44,489 2112345 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:35:44,489 2112345 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:35:44,490 2112346 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:35:44,494 2112350 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:35:44,497 2112353 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 001_1_001.ome - Copy (20).tif 2011-04-04 11:35:44,502 2112358 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:35:44,508 2112364 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:35:44,509 2112365 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:35:44,509 2112365 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:35:44,510 2112366 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:35:44,510 2112366 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:35:44,510 2112366 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 001_1_001.ome - Copy (20).tif 2011-04-04 11:35:44,511 2112367 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:35:44,511 2112367 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:35:44,512 2112368 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:35:44,512 2112368 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:35:44,513 2112369 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:35:44,517 2112373 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:35:44,518 2112374 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:35:44,518 2112374 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:35:44,519 2112375 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:35:44,519 2112375 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@1cb63fd,Image:0 2011-04-04 11:35:44,520 2112376 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@1f54169,omero.model.OriginalFile:0 2011-04-04 11:35:44,520 2112376 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@18657b9,Pixels:0 2011-04-04 11:35:44,520 2112376 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@310a6d,Channel:0:0 2011-04-04 11:35:44,521 2112377 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@1829770,Channel:0:1 2011-04-04 11:35:44,521 2112377 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@f79c86,Channel:0:2 2011-04-04 11:35:44,522 2112378 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@17e85e4,omero.model.FileAnnotation:0:0 2011-04-04 11:35:44,522 2112378 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@c182ee,omero.model.LogicalChannel:0:0 2011-04-04 11:35:44,523 2112379 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@b0058,omero.model.LogicalChannel:0:1 2011-04-04 11:35:44,523 2112379 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@5ed596,omero.model.LogicalChannel:0:2 2011-04-04 11:35:44,523 2112379 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:35:44,524 2112380 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:35:44,524 2112380 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:753 2011-04-04 11:35:44,525 2112381 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:35:44,525 2112381 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:35:44,525 2112381 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:35:44,571 2112427 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7917 2011-04-04 11:35:44,584 2112440 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:35:44,591 2112447 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:35:44,677 2112533 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:35:44,872 2112728 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:35:45,131 2112987 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:35:45,390 2113246 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:35:45,391 2113247 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:35:45,872 2113728 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:35:45,873 2113729 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:35:46,032 2113888 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:35:46,033 2113889 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:35:46,041 2113897 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:35:57,388 2125244 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:35:57,389 2125245 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 001_1_001.ome - Copy (21).tif 2011-04-04 11:36:00,531 2128387 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.OMETiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (21).tif) 2011-04-04 11:36:00,531 2128387 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:36:00,555 2128411 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: OMETiff 2011-04-04 11:36:00,556 2128412 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: OMETiff 2011-04-04 11:36:00,559 2128415 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:36:00,562 2128418 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:36:00,565 2128421 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:36:00,570 2128426 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYZCT 2011-04-04 11:36:00,570 2128426 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:36:00,572 2128428 [2-thread-1] DEBUG loci.formats.FormatHandler - Image[0] { 2011-04-04 11:36:00,572 2128428 [2-thread-1] DEBUG loci.formats.FormatHandler - id = urn:lsid:export.openmicroscopy.org:Image:51c3a594-2ec4-449b-a9a9-cdfde6d51ecd_4578:31364 2011-04-04 11:36:00,572 2128428 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[0] { 2011-04-04 11:36:00,573 2128429 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[0]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (21).tif, IFD=0 2011-04-04 11:36:00,573 2128429 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: CLEARED 2011-04-04 11:36:00,573 2128429 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: CLEARED 2011-04-04 11:36:00,573 2128429 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:36:00,573 2128429 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[1] { 2011-04-04 11:36:00,574 2128430 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (21).tif, IFD=1 2011-04-04 11:36:00,574 2128430 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: CLEARED 2011-04-04 11:36:00,574 2128430 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:36:00,574 2128430 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[2] { 2011-04-04 11:36:00,575 2128431 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (21).tif, IFD=2 2011-04-04 11:36:00,575 2128431 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:36:00,575 2128431 [2-thread-1] DEBUG loci.formats.FormatHandler - -------------------------------- 2011-04-04 11:36:00,575 2128431 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[0]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (21).tif, IFD=0 2011-04-04 11:36:00,575 2128431 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (21).tif, IFD=1 2011-04-04 11:36:00,575 2128431 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (21).tif, IFD=2 2011-04-04 11:36:00,575 2128431 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:36:00,576 2128432 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:36:00,576 2128432 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:36:00,576 2128432 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:36:00,576 2128432 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:36:00,576 2128432 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:36:00,577 2128433 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:36:00,577 2128433 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:36:00,577 2128433 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:36:00,577 2128433 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:36:00,577 2128433 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:36:00,577 2128433 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:36:00,580 2128436 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:36:00,583 2128439 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.MinimalTiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (21).tif) 2011-04-04 11:36:00,585 2128441 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:36:00,638 2128494 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:36:00,642 2128498 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:36:00,642 2128498 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:36:00,642 2128498 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:36:00,642 2128498 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:36:00,642 2128498 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:36:00,643 2128499 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:36:00,643 2128499 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:36:00,643 2128499 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:36:00,643 2128499 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:36:00,643 2128499 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:36:00,643 2128499 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:36:00,644 2128500 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:36:00,648 2128504 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:36:00,651 2128507 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 001_1_001.ome - Copy (21).tif 2011-04-04 11:36:00,656 2128512 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:36:00,665 2128521 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:36:00,669 2128525 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:36:00,669 2128525 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:36:00,670 2128526 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:36:00,670 2128526 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:36:00,671 2128527 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 001_1_001.ome - Copy (21).tif 2011-04-04 11:36:00,671 2128527 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:36:00,671 2128527 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:36:00,672 2128528 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:36:00,672 2128528 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:36:00,673 2128529 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:36:00,673 2128529 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:36:00,674 2128530 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:36:00,674 2128530 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:36:00,675 2128531 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:36:00,675 2128531 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@4a39f6,Image:0 2011-04-04 11:36:00,675 2128531 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@17a1ad3,omero.model.OriginalFile:0 2011-04-04 11:36:00,676 2128532 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@b5922e,Pixels:0 2011-04-04 11:36:00,676 2128532 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@7d5718,Channel:0:0 2011-04-04 11:36:00,677 2128533 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@102484e,Channel:0:1 2011-04-04 11:36:00,677 2128533 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@b45831,Channel:0:2 2011-04-04 11:36:00,678 2128534 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@a7476f,omero.model.FileAnnotation:0:0 2011-04-04 11:36:00,678 2128534 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@11c486a,omero.model.LogicalChannel:0:0 2011-04-04 11:36:00,679 2128535 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@5cdd29,omero.model.LogicalChannel:0:1 2011-04-04 11:36:00,679 2128535 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@1d9b4aa,omero.model.LogicalChannel:0:2 2011-04-04 11:36:00,679 2128535 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:36:00,680 2128536 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:36:00,680 2128536 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:753 2011-04-04 11:36:00,681 2128537 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:36:00,681 2128537 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:36:00,681 2128537 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:36:00,741 2128597 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7918 2011-04-04 11:36:00,744 2128600 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:36:00,752 2128608 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:36:01,011 2128867 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:36:01,277 2129133 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:36:01,546 2129402 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:36:01,547 2129403 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:36:02,025 2129881 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:36:02,025 2129881 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:36:02,187 2130043 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:36:02,188 2130044 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:36:02,195 2130051 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:36:13,650 2141506 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:36:13,651 2141507 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 001_1_001.ome - Copy (22).tif 2011-04-04 11:36:17,171 2145027 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.OMETiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (22).tif) 2011-04-04 11:36:17,171 2145027 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:36:17,200 2145056 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: OMETiff 2011-04-04 11:36:17,201 2145057 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: OMETiff 2011-04-04 11:36:17,205 2145061 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:36:17,209 2145065 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:36:17,213 2145069 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:36:17,220 2145076 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYZCT 2011-04-04 11:36:17,220 2145076 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:36:17,225 2145081 [2-thread-1] DEBUG loci.formats.FormatHandler - Image[0] { 2011-04-04 11:36:17,225 2145081 [2-thread-1] DEBUG loci.formats.FormatHandler - id = urn:lsid:export.openmicroscopy.org:Image:51c3a594-2ec4-449b-a9a9-cdfde6d51ecd_4578:31364 2011-04-04 11:36:17,225 2145081 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[0] { 2011-04-04 11:36:17,226 2145082 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[0]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (22).tif, IFD=0 2011-04-04 11:36:17,226 2145082 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: CLEARED 2011-04-04 11:36:17,226 2145082 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: CLEARED 2011-04-04 11:36:17,226 2145082 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:36:17,226 2145082 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[1] { 2011-04-04 11:36:17,227 2145083 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (22).tif, IFD=1 2011-04-04 11:36:17,227 2145083 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: CLEARED 2011-04-04 11:36:17,227 2145083 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:36:17,227 2145083 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[2] { 2011-04-04 11:36:17,228 2145084 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (22).tif, IFD=2 2011-04-04 11:36:17,228 2145084 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:36:17,228 2145084 [2-thread-1] DEBUG loci.formats.FormatHandler - -------------------------------- 2011-04-04 11:36:17,228 2145084 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[0]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (22).tif, IFD=0 2011-04-04 11:36:17,228 2145084 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (22).tif, IFD=1 2011-04-04 11:36:17,228 2145084 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (22).tif, IFD=2 2011-04-04 11:36:17,228 2145084 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:36:17,229 2145085 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:36:17,229 2145085 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:36:17,229 2145085 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:36:17,229 2145085 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:36:17,229 2145085 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:36:17,229 2145085 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:36:17,229 2145085 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:36:17,230 2145086 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:36:17,230 2145086 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:36:17,230 2145086 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:36:17,230 2145086 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:36:17,231 2145087 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:36:17,232 2145088 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.MinimalTiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (22).tif) 2011-04-04 11:36:17,234 2145090 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:36:17,309 2145165 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:36:17,313 2145169 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:36:17,313 2145169 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:36:17,313 2145169 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:36:17,313 2145169 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:36:17,313 2145169 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:36:17,313 2145169 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:36:17,313 2145169 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:36:17,314 2145170 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:36:17,314 2145170 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:36:17,314 2145170 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:36:17,314 2145170 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:36:17,315 2145171 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:36:17,319 2145175 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:36:17,326 2145182 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 001_1_001.ome - Copy (22).tif 2011-04-04 11:36:17,328 2145184 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:36:17,330 2145186 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:36:17,332 2145188 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:36:17,333 2145189 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:36:17,334 2145190 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:36:17,334 2145190 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:36:17,334 2145190 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 001_1_001.ome - Copy (22).tif 2011-04-04 11:36:17,335 2145191 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:36:17,335 2145191 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:36:17,336 2145192 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:36:17,336 2145192 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:36:17,336 2145192 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:36:17,337 2145193 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:36:17,338 2145194 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:36:17,338 2145194 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:36:17,339 2145195 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:36:17,343 2145199 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@374a16,Image:0 2011-04-04 11:36:17,343 2145199 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@180874,omero.model.OriginalFile:0 2011-04-04 11:36:17,344 2145200 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@c1853,Pixels:0 2011-04-04 11:36:17,344 2145200 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@3b813c,Channel:0:0 2011-04-04 11:36:17,345 2145201 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@196dc99,Channel:0:1 2011-04-04 11:36:17,345 2145201 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@aff016,Channel:0:2 2011-04-04 11:36:17,345 2145201 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@17ff1ad,omero.model.FileAnnotation:0:0 2011-04-04 11:36:17,346 2145202 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@465c16,omero.model.LogicalChannel:0:0 2011-04-04 11:36:17,346 2145202 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@186edfb,omero.model.LogicalChannel:0:1 2011-04-04 11:36:17,347 2145203 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@18a68da,omero.model.LogicalChannel:0:2 2011-04-04 11:36:17,347 2145203 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:36:17,347 2145203 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:36:17,348 2145204 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:753 2011-04-04 11:36:17,348 2145204 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:36:17,348 2145204 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:36:17,349 2145205 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:36:17,402 2145258 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7919 2011-04-04 11:36:17,408 2145264 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:36:17,415 2145271 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:36:17,680 2145536 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:36:17,962 2145818 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:36:18,218 2146074 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:36:18,219 2146075 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:36:18,722 2146578 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:36:18,723 2146579 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:36:18,898 2146754 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:36:18,899 2146755 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:36:18,909 2146765 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:36:30,265 2158121 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:36:30,266 2158122 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 001_1_001.ome - Copy (23).tif 2011-04-04 11:36:33,448 2161304 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.OMETiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (23).tif) 2011-04-04 11:36:33,448 2161304 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:36:33,473 2161329 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: OMETiff 2011-04-04 11:36:33,474 2161330 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: OMETiff 2011-04-04 11:36:33,477 2161333 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:36:33,480 2161336 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:36:33,484 2161340 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:36:33,488 2161344 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYZCT 2011-04-04 11:36:33,491 2161347 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:36:33,496 2161352 [2-thread-1] DEBUG loci.formats.FormatHandler - Image[0] { 2011-04-04 11:36:33,496 2161352 [2-thread-1] DEBUG loci.formats.FormatHandler - id = urn:lsid:export.openmicroscopy.org:Image:51c3a594-2ec4-449b-a9a9-cdfde6d51ecd_4578:31364 2011-04-04 11:36:33,496 2161352 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[0] { 2011-04-04 11:36:33,497 2161353 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[0]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (23).tif, IFD=0 2011-04-04 11:36:33,497 2161353 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: CLEARED 2011-04-04 11:36:33,497 2161353 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: CLEARED 2011-04-04 11:36:33,497 2161353 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:36:33,497 2161353 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[1] { 2011-04-04 11:36:33,497 2161353 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (23).tif, IFD=1 2011-04-04 11:36:33,497 2161353 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: CLEARED 2011-04-04 11:36:33,497 2161353 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:36:33,497 2161353 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[2] { 2011-04-04 11:36:33,498 2161354 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (23).tif, IFD=2 2011-04-04 11:36:33,498 2161354 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:36:33,498 2161354 [2-thread-1] DEBUG loci.formats.FormatHandler - -------------------------------- 2011-04-04 11:36:33,498 2161354 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[0]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (23).tif, IFD=0 2011-04-04 11:36:33,498 2161354 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (23).tif, IFD=1 2011-04-04 11:36:33,499 2161355 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (23).tif, IFD=2 2011-04-04 11:36:33,499 2161355 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:36:33,500 2161356 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:36:33,500 2161356 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:36:33,500 2161356 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:36:33,500 2161356 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:36:33,500 2161356 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:36:33,500 2161356 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:36:33,500 2161356 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:36:33,501 2161357 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:36:33,501 2161357 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:36:33,501 2161357 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:36:33,501 2161357 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:36:33,502 2161358 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:36:33,506 2161362 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.MinimalTiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (23).tif) 2011-04-04 11:36:33,508 2161364 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:36:33,609 2161465 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:36:33,613 2161469 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:36:33,613 2161469 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:36:33,613 2161469 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:36:33,613 2161469 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:36:33,613 2161469 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:36:33,613 2161469 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:36:33,614 2161470 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:36:33,614 2161470 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:36:33,614 2161470 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:36:33,614 2161470 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:36:33,614 2161470 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:36:33,615 2161471 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:36:33,619 2161475 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:36:33,622 2161478 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 001_1_001.ome - Copy (23).tif 2011-04-04 11:36:33,626 2161482 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:36:33,632 2161488 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:36:33,632 2161488 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:36:33,633 2161489 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:36:33,633 2161489 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:36:33,634 2161490 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:36:33,634 2161490 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 001_1_001.ome - Copy (23).tif 2011-04-04 11:36:33,635 2161491 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:36:33,635 2161491 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:36:33,635 2161491 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:36:33,636 2161492 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:36:33,640 2161496 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:36:33,641 2161497 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:36:33,641 2161497 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:36:33,642 2161498 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:36:33,642 2161498 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:36:33,643 2161499 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@997c85,Image:0 2011-04-04 11:36:33,643 2161499 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@1a5688d,omero.model.OriginalFile:0 2011-04-04 11:36:33,644 2161500 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@2baa00,Pixels:0 2011-04-04 11:36:33,644 2161500 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@153a539,Channel:0:0 2011-04-04 11:36:33,644 2161500 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@d8573,Channel:0:1 2011-04-04 11:36:33,645 2161501 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@10bdf62,Channel:0:2 2011-04-04 11:36:33,645 2161501 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@16c6a89,omero.model.FileAnnotation:0:0 2011-04-04 11:36:33,646 2161502 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1ed2f0,omero.model.LogicalChannel:0:0 2011-04-04 11:36:33,646 2161502 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@f94d3b,omero.model.LogicalChannel:0:1 2011-04-04 11:36:33,647 2161503 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@1f3668b,omero.model.LogicalChannel:0:2 2011-04-04 11:36:33,647 2161503 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:36:33,647 2161503 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:36:33,648 2161504 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:753 2011-04-04 11:36:33,648 2161504 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:36:33,648 2161504 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:36:33,649 2161505 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:36:33,700 2161556 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7920 2011-04-04 11:36:33,710 2161566 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:36:33,717 2161573 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:36:33,978 2161834 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:36:34,265 2162121 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:36:34,539 2162395 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:36:34,540 2162396 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:36:35,027 2162883 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:36:35,028 2162884 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:36:35,213 2163069 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:36:35,214 2163070 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:36:35,224 2163080 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:36:44,677 2172533 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:36:46,533 2174389 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:36:46,534 2174390 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 001_1_001.ome - Copy (3).tif 2011-04-04 11:36:49,691 2177547 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.OMETiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (3).tif) 2011-04-04 11:36:49,691 2177547 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:36:49,716 2177572 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: OMETiff 2011-04-04 11:36:49,717 2177573 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: OMETiff 2011-04-04 11:36:49,719 2177575 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:36:49,722 2177578 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:36:49,725 2177581 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:36:49,728 2177584 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYZCT 2011-04-04 11:36:49,731 2177587 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:36:49,735 2177591 [2-thread-1] DEBUG loci.formats.FormatHandler - Image[0] { 2011-04-04 11:36:49,735 2177591 [2-thread-1] DEBUG loci.formats.FormatHandler - id = urn:lsid:export.openmicroscopy.org:Image:51c3a594-2ec4-449b-a9a9-cdfde6d51ecd_4578:31364 2011-04-04 11:36:49,735 2177591 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[0] { 2011-04-04 11:36:49,735 2177591 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[0]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (3).tif, IFD=0 2011-04-04 11:36:49,735 2177591 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: CLEARED 2011-04-04 11:36:49,736 2177592 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: CLEARED 2011-04-04 11:36:49,736 2177592 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:36:49,736 2177592 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[1] { 2011-04-04 11:36:49,736 2177592 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (3).tif, IFD=1 2011-04-04 11:36:49,736 2177592 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: CLEARED 2011-04-04 11:36:49,736 2177592 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:36:49,736 2177592 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[2] { 2011-04-04 11:36:49,737 2177593 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (3).tif, IFD=2 2011-04-04 11:36:49,737 2177593 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:36:49,737 2177593 [2-thread-1] DEBUG loci.formats.FormatHandler - -------------------------------- 2011-04-04 11:36:49,737 2177593 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[0]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (3).tif, IFD=0 2011-04-04 11:36:49,737 2177593 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (3).tif, IFD=1 2011-04-04 11:36:49,737 2177593 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (3).tif, IFD=2 2011-04-04 11:36:49,737 2177593 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:36:49,738 2177594 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:36:49,738 2177594 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:36:49,738 2177594 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:36:49,738 2177594 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:36:49,738 2177594 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:36:49,739 2177595 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:36:49,739 2177595 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:36:49,739 2177595 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:36:49,739 2177595 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:36:49,739 2177595 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:36:49,739 2177595 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:36:49,740 2177596 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:36:49,743 2177599 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.MinimalTiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (3).tif) 2011-04-04 11:36:49,745 2177601 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:36:49,815 2177671 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:36:49,819 2177675 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:36:49,819 2177675 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:36:49,819 2177675 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:36:49,819 2177675 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:36:49,820 2177676 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:36:49,820 2177676 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:36:49,820 2177676 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:36:49,820 2177676 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:36:49,820 2177676 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:36:49,820 2177676 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:36:49,820 2177676 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:36:49,821 2177677 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:36:49,825 2177681 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:36:49,829 2177685 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 001_1_001.ome - Copy (3).tif 2011-04-04 11:36:49,838 2177694 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:36:49,840 2177696 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:36:49,841 2177697 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:36:49,841 2177697 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:36:49,842 2177698 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:36:49,842 2177698 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:36:49,843 2177699 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 001_1_001.ome - Copy (3).tif 2011-04-04 11:36:49,843 2177699 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:36:49,844 2177700 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:36:49,844 2177700 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:36:49,844 2177700 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:36:49,845 2177701 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:36:49,845 2177701 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:36:49,846 2177702 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:36:49,846 2177702 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:36:49,847 2177703 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:36:49,847 2177703 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@193a095,Image:0 2011-04-04 11:36:49,848 2177704 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@17d262b,omero.model.OriginalFile:0 2011-04-04 11:36:49,848 2177704 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@12e9d2,Pixels:0 2011-04-04 11:36:49,848 2177704 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@1dbadea,Channel:0:0 2011-04-04 11:36:49,849 2177705 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@1b1c85e,Channel:0:1 2011-04-04 11:36:49,849 2177705 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@a9f5e9,Channel:0:2 2011-04-04 11:36:49,850 2177706 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@1fe5c83,omero.model.FileAnnotation:0:0 2011-04-04 11:36:49,850 2177706 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@3c7dbf,omero.model.LogicalChannel:0:0 2011-04-04 11:36:49,851 2177707 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@213544,omero.model.LogicalChannel:0:1 2011-04-04 11:36:49,851 2177707 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@166137c,omero.model.LogicalChannel:0:2 2011-04-04 11:36:49,852 2177708 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:36:49,852 2177708 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:36:49,853 2177709 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:753 2011-04-04 11:36:49,853 2177709 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:36:49,853 2177709 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:36:49,854 2177710 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:36:49,905 2177761 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7921 2011-04-04 11:36:49,914 2177770 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:36:49,921 2177777 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:36:50,221 2178077 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:36:50,478 2178334 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:36:50,731 2178587 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:36:50,731 2178587 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:36:51,212 2179068 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:36:51,213 2179069 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:36:51,388 2179244 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:36:51,389 2179245 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:36:51,399 2179255 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:37:02,769 2190625 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:37:02,770 2190626 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 001_1_001.ome - Copy (4).tif 2011-04-04 11:37:05,899 2193755 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.OMETiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (4).tif) 2011-04-04 11:37:05,899 2193755 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:37:05,927 2193783 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: OMETiff 2011-04-04 11:37:05,928 2193784 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: OMETiff 2011-04-04 11:37:05,928 2193784 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:37:05,934 2193790 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:37:05,935 2193791 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:37:05,936 2193792 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYZCT 2011-04-04 11:37:05,937 2193793 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:37:05,938 2193794 [2-thread-1] DEBUG loci.formats.FormatHandler - Image[0] { 2011-04-04 11:37:05,939 2193795 [2-thread-1] DEBUG loci.formats.FormatHandler - id = urn:lsid:export.openmicroscopy.org:Image:51c3a594-2ec4-449b-a9a9-cdfde6d51ecd_4578:31364 2011-04-04 11:37:05,939 2193795 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[0] { 2011-04-04 11:37:05,939 2193795 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[0]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (4).tif, IFD=0 2011-04-04 11:37:05,939 2193795 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: CLEARED 2011-04-04 11:37:05,939 2193795 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: CLEARED 2011-04-04 11:37:05,939 2193795 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:37:05,939 2193795 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[1] { 2011-04-04 11:37:05,940 2193796 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (4).tif, IFD=1 2011-04-04 11:37:05,940 2193796 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: CLEARED 2011-04-04 11:37:05,940 2193796 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:37:05,940 2193796 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[2] { 2011-04-04 11:37:05,941 2193797 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (4).tif, IFD=2 2011-04-04 11:37:05,942 2193798 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:37:05,942 2193798 [2-thread-1] DEBUG loci.formats.FormatHandler - -------------------------------- 2011-04-04 11:37:05,942 2193798 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[0]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (4).tif, IFD=0 2011-04-04 11:37:05,942 2193798 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (4).tif, IFD=1 2011-04-04 11:37:05,942 2193798 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (4).tif, IFD=2 2011-04-04 11:37:05,942 2193798 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:37:05,943 2193799 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:37:05,943 2193799 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:37:05,943 2193799 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:37:05,943 2193799 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:37:05,943 2193799 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:37:05,944 2193800 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:37:05,944 2193800 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:37:05,944 2193800 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:37:05,944 2193800 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:37:05,944 2193800 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:37:05,944 2193800 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:37:05,945 2193801 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:37:05,953 2193809 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.MinimalTiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (4).tif) 2011-04-04 11:37:05,955 2193811 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:37:06,010 2193866 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:37:06,014 2193870 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:37:06,014 2193870 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:37:06,014 2193870 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:37:06,014 2193870 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:37:06,014 2193870 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:37:06,015 2193871 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:37:06,015 2193871 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:37:06,015 2193871 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:37:06,015 2193871 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:37:06,015 2193871 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:37:06,016 2193872 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:37:06,016 2193872 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:37:06,020 2193876 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:37:06,024 2193880 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 001_1_001.ome - Copy (4).tif 2011-04-04 11:37:06,028 2193884 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:37:06,034 2193890 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:37:06,034 2193890 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:37:06,035 2193891 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:37:06,035 2193891 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:37:06,036 2193892 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:37:06,036 2193892 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 001_1_001.ome - Copy (4).tif 2011-04-04 11:37:06,036 2193892 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:37:06,037 2193893 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:37:06,038 2193894 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:37:06,038 2193894 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:37:06,039 2193895 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:37:06,039 2193895 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:37:06,040 2193896 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:37:06,040 2193896 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:37:06,041 2193897 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:37:06,042 2193898 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@12e49bc,Image:0 2011-04-04 11:37:06,042 2193898 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@1899472,omero.model.OriginalFile:0 2011-04-04 11:37:06,043 2193899 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@b3bc48,Pixels:0 2011-04-04 11:37:06,043 2193899 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@81876b,Channel:0:0 2011-04-04 11:37:06,044 2193900 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@a7a849,Channel:0:1 2011-04-04 11:37:06,045 2193901 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@12ccbba,Channel:0:2 2011-04-04 11:37:06,049 2193905 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@a58ee4,omero.model.FileAnnotation:0:0 2011-04-04 11:37:06,049 2193905 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1a5342b,omero.model.LogicalChannel:0:0 2011-04-04 11:37:06,050 2193906 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@1defbbf,omero.model.LogicalChannel:0:1 2011-04-04 11:37:06,050 2193906 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@63f7c7,omero.model.LogicalChannel:0:2 2011-04-04 11:37:06,051 2193907 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:37:06,051 2193907 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:37:06,052 2193908 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:753 2011-04-04 11:37:06,052 2193908 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:37:06,053 2193909 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:37:06,053 2193909 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:37:06,102 2193958 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7922 2011-04-04 11:37:06,117 2193973 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:37:06,125 2193981 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:37:06,392 2194248 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:37:06,673 2194529 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:37:06,925 2194781 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:37:06,930 2194786 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:37:07,422 2195278 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:37:07,423 2195279 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:37:07,567 2195423 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:37:07,568 2195424 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:37:07,578 2195434 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:37:18,862 2206718 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:37:18,863 2206719 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 001_1_001.ome - Copy (5).tif 2011-04-04 11:37:22,228 2210084 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.OMETiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (5).tif) 2011-04-04 11:37:22,228 2210084 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:37:22,257 2210113 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: OMETiff 2011-04-04 11:37:22,258 2210114 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: OMETiff 2011-04-04 11:37:22,261 2210117 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:37:22,265 2210121 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:37:22,269 2210125 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:37:22,274 2210130 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYZCT 2011-04-04 11:37:22,277 2210133 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:37:22,282 2210138 [2-thread-1] DEBUG loci.formats.FormatHandler - Image[0] { 2011-04-04 11:37:22,282 2210138 [2-thread-1] DEBUG loci.formats.FormatHandler - id = urn:lsid:export.openmicroscopy.org:Image:51c3a594-2ec4-449b-a9a9-cdfde6d51ecd_4578:31364 2011-04-04 11:37:22,282 2210138 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[0] { 2011-04-04 11:37:22,283 2210139 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[0]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (5).tif, IFD=0 2011-04-04 11:37:22,283 2210139 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: CLEARED 2011-04-04 11:37:22,283 2210139 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: CLEARED 2011-04-04 11:37:22,283 2210139 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:37:22,283 2210139 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[1] { 2011-04-04 11:37:22,284 2210140 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (5).tif, IFD=1 2011-04-04 11:37:22,284 2210140 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: CLEARED 2011-04-04 11:37:22,284 2210140 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:37:22,284 2210140 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[2] { 2011-04-04 11:37:22,285 2210141 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (5).tif, IFD=2 2011-04-04 11:37:22,285 2210141 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:37:22,285 2210141 [2-thread-1] DEBUG loci.formats.FormatHandler - -------------------------------- 2011-04-04 11:37:22,285 2210141 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[0]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (5).tif, IFD=0 2011-04-04 11:37:22,285 2210141 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (5).tif, IFD=1 2011-04-04 11:37:22,285 2210141 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (5).tif, IFD=2 2011-04-04 11:37:22,285 2210141 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:37:22,286 2210142 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:37:22,286 2210142 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:37:22,286 2210142 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:37:22,286 2210142 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:37:22,286 2210142 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:37:22,286 2210142 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:37:22,286 2210142 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:37:22,287 2210143 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:37:22,287 2210143 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:37:22,287 2210143 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:37:22,287 2210143 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:37:22,287 2210143 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:37:22,291 2210147 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.MinimalTiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (5).tif) 2011-04-04 11:37:22,294 2210150 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:37:22,351 2210207 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:37:22,355 2210211 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:37:22,355 2210211 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:37:22,355 2210211 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:37:22,355 2210211 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:37:22,355 2210211 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:37:22,355 2210211 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:37:22,355 2210211 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:37:22,356 2210212 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:37:22,356 2210212 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:37:22,356 2210212 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:37:22,356 2210212 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:37:22,357 2210213 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:37:22,360 2210216 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:37:22,363 2210219 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 001_1_001.ome - Copy (5).tif 2011-04-04 11:37:22,367 2210223 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:37:22,374 2210230 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:37:22,374 2210230 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:37:22,375 2210231 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:37:22,375 2210231 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:37:22,376 2210232 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:37:22,376 2210232 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 001_1_001.ome - Copy (5).tif 2011-04-04 11:37:22,376 2210232 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:37:22,377 2210233 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:37:22,377 2210233 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:37:22,378 2210234 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:37:22,378 2210234 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:37:22,379 2210235 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:37:22,383 2210239 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:37:22,383 2210239 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:37:22,384 2210240 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:37:22,385 2210241 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@1542b5d,Image:0 2011-04-04 11:37:22,385 2210241 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@18debd3,omero.model.OriginalFile:0 2011-04-04 11:37:22,385 2210241 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@190f66a,Pixels:0 2011-04-04 11:37:22,386 2210242 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@6c44c5,Channel:0:0 2011-04-04 11:37:22,386 2210242 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@1deaff7,Channel:0:1 2011-04-04 11:37:22,387 2210243 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@1113622,Channel:0:2 2011-04-04 11:37:22,387 2210243 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@8e4be2,omero.model.FileAnnotation:0:0 2011-04-04 11:37:22,387 2210243 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1b970ed,omero.model.LogicalChannel:0:0 2011-04-04 11:37:22,388 2210244 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@17347df,omero.model.LogicalChannel:0:1 2011-04-04 11:37:22,388 2210244 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@1d5894a,omero.model.LogicalChannel:0:2 2011-04-04 11:37:22,389 2210245 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:37:22,389 2210245 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:37:22,389 2210245 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:753 2011-04-04 11:37:22,390 2210246 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:37:22,390 2210246 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:37:22,391 2210247 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:37:22,440 2210296 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7923 2011-04-04 11:37:22,459 2210315 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:37:22,469 2210325 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:37:22,823 2210679 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:37:23,086 2210942 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:37:23,338 2211194 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:37:23,339 2211195 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:37:23,834 2211690 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:37:23,835 2211691 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:37:23,998 2211854 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:37:23,999 2211855 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:37:24,007 2211863 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:37:35,329 2223185 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:37:35,330 2223186 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 001_1_001.ome - Copy (6).tif 2011-04-04 11:37:38,556 2226412 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.OMETiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (6).tif) 2011-04-04 11:37:38,556 2226412 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:37:38,583 2226439 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: OMETiff 2011-04-04 11:37:38,584 2226440 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: OMETiff 2011-04-04 11:37:38,588 2226444 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:37:38,594 2226450 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:37:38,595 2226451 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:37:38,599 2226455 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYZCT 2011-04-04 11:37:38,603 2226459 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:37:38,608 2226464 [2-thread-1] DEBUG loci.formats.FormatHandler - Image[0] { 2011-04-04 11:37:38,608 2226464 [2-thread-1] DEBUG loci.formats.FormatHandler - id = urn:lsid:export.openmicroscopy.org:Image:51c3a594-2ec4-449b-a9a9-cdfde6d51ecd_4578:31364 2011-04-04 11:37:38,608 2226464 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[0] { 2011-04-04 11:37:38,609 2226465 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[0]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (6).tif, IFD=0 2011-04-04 11:37:38,609 2226465 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: CLEARED 2011-04-04 11:37:38,609 2226465 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: CLEARED 2011-04-04 11:37:38,609 2226465 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:37:38,609 2226465 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[1] { 2011-04-04 11:37:38,609 2226465 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (6).tif, IFD=1 2011-04-04 11:37:38,609 2226465 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: CLEARED 2011-04-04 11:37:38,609 2226465 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:37:38,610 2226466 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[2] { 2011-04-04 11:37:38,610 2226466 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (6).tif, IFD=2 2011-04-04 11:37:38,610 2226466 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:37:38,610 2226466 [2-thread-1] DEBUG loci.formats.FormatHandler - -------------------------------- 2011-04-04 11:37:38,610 2226466 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[0]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (6).tif, IFD=0 2011-04-04 11:37:38,610 2226466 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (6).tif, IFD=1 2011-04-04 11:37:38,610 2226466 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (6).tif, IFD=2 2011-04-04 11:37:38,610 2226466 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:37:38,612 2226468 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:37:38,612 2226468 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:37:38,612 2226468 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:37:38,612 2226468 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:37:38,612 2226468 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:37:38,612 2226468 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:37:38,612 2226468 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:37:38,613 2226469 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:37:38,613 2226469 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:37:38,613 2226469 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:37:38,613 2226469 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:37:38,614 2226470 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:37:38,615 2226471 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.MinimalTiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (6).tif) 2011-04-04 11:37:38,617 2226473 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:37:38,669 2226525 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:37:38,674 2226530 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:37:38,674 2226530 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:37:38,674 2226530 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:37:38,674 2226530 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:37:38,674 2226530 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:37:38,674 2226530 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:37:38,674 2226530 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:37:38,674 2226530 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:37:38,675 2226531 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:37:38,675 2226531 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:37:38,675 2226531 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:37:38,675 2226531 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:37:38,679 2226535 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:37:38,683 2226539 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 001_1_001.ome - Copy (6).tif 2011-04-04 11:37:38,687 2226543 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:37:38,692 2226548 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:37:38,693 2226549 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:37:38,694 2226550 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:37:38,694 2226550 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:37:38,694 2226550 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:37:38,695 2226551 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 001_1_001.ome - Copy (6).tif 2011-04-04 11:37:38,695 2226551 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:37:38,696 2226552 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:37:38,696 2226552 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:37:38,696 2226552 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:37:38,697 2226553 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:37:38,702 2226558 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:37:38,702 2226558 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:37:38,703 2226559 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:37:38,703 2226559 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:37:38,704 2226560 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@a8fc06,Image:0 2011-04-04 11:37:38,704 2226560 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@1a6f843,omero.model.OriginalFile:0 2011-04-04 11:37:38,705 2226561 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@5697e9,Pixels:0 2011-04-04 11:37:38,705 2226561 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@dbf7a2,Channel:0:0 2011-04-04 11:37:38,706 2226562 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@8f310f,Channel:0:1 2011-04-04 11:37:38,706 2226562 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@ce93f,Channel:0:2 2011-04-04 11:37:38,706 2226562 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@1c65470,omero.model.FileAnnotation:0:0 2011-04-04 11:37:38,707 2226563 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1f4c5ce,omero.model.LogicalChannel:0:0 2011-04-04 11:37:38,707 2226563 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@1b38e47,omero.model.LogicalChannel:0:1 2011-04-04 11:37:38,708 2226564 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@1430892,omero.model.LogicalChannel:0:2 2011-04-04 11:37:38,708 2226564 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:37:38,709 2226565 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:37:38,709 2226565 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:753 2011-04-04 11:37:38,709 2226565 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:37:38,710 2226566 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:37:38,710 2226566 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:37:38,761 2226617 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7924 2011-04-04 11:37:38,772 2226628 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:37:38,779 2226635 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:37:39,053 2226909 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:37:39,316 2227172 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:37:39,574 2227430 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:37:39,575 2227431 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:37:40,051 2227907 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:37:40,052 2227908 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:37:40,229 2228085 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:37:40,230 2228086 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:37:40,233 2228089 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:37:44,859 2232715 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:37:51,530 2239386 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:37:51,531 2239387 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 001_1_001.ome - Copy (7).tif 2011-04-04 11:37:54,953 2242809 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.OMETiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (7).tif) 2011-04-04 11:37:54,953 2242809 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:37:54,977 2242833 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: OMETiff 2011-04-04 11:37:54,978 2242834 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: OMETiff 2011-04-04 11:37:54,985 2242841 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:37:54,986 2242842 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:37:54,990 2242846 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:37:54,991 2242847 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYZCT 2011-04-04 11:37:54,992 2242848 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:37:54,994 2242850 [2-thread-1] DEBUG loci.formats.FormatHandler - Image[0] { 2011-04-04 11:37:54,994 2242850 [2-thread-1] DEBUG loci.formats.FormatHandler - id = urn:lsid:export.openmicroscopy.org:Image:51c3a594-2ec4-449b-a9a9-cdfde6d51ecd_4578:31364 2011-04-04 11:37:54,994 2242850 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[0] { 2011-04-04 11:37:54,994 2242850 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[0]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (7).tif, IFD=0 2011-04-04 11:37:54,994 2242850 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: CLEARED 2011-04-04 11:37:54,994 2242850 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: CLEARED 2011-04-04 11:37:54,995 2242851 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:37:54,995 2242851 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[1] { 2011-04-04 11:37:54,995 2242851 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (7).tif, IFD=1 2011-04-04 11:37:54,995 2242851 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: CLEARED 2011-04-04 11:37:54,995 2242851 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:37:54,995 2242851 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[2] { 2011-04-04 11:37:54,996 2242852 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (7).tif, IFD=2 2011-04-04 11:37:54,996 2242852 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:37:54,996 2242852 [2-thread-1] DEBUG loci.formats.FormatHandler - -------------------------------- 2011-04-04 11:37:54,996 2242852 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[0]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (7).tif, IFD=0 2011-04-04 11:37:54,996 2242852 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (7).tif, IFD=1 2011-04-04 11:37:54,996 2242852 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (7).tif, IFD=2 2011-04-04 11:37:54,996 2242852 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:37:54,997 2242853 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:37:54,997 2242853 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:37:54,997 2242853 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:37:54,997 2242853 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:37:54,997 2242853 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:37:54,997 2242853 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:37:54,997 2242853 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:37:54,998 2242854 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:37:54,998 2242854 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:37:54,998 2242854 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:37:54,998 2242854 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:37:54,999 2242855 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:37:55,008 2242864 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.MinimalTiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (7).tif) 2011-04-04 11:37:55,010 2242866 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:37:55,075 2242931 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:37:55,080 2242936 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:37:55,080 2242936 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:37:55,080 2242936 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:37:55,080 2242936 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:37:55,080 2242936 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:37:55,080 2242936 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:37:55,080 2242936 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:37:55,081 2242937 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:37:55,081 2242937 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:37:55,081 2242937 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:37:55,081 2242937 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:37:55,082 2242938 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:37:55,083 2242939 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:37:55,084 2242940 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 001_1_001.ome - Copy (7).tif 2011-04-04 11:37:55,085 2242941 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:37:55,099 2242955 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:37:55,100 2242956 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:37:55,100 2242956 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:37:55,101 2242957 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:37:55,101 2242957 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:37:55,102 2242958 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 001_1_001.ome - Copy (7).tif 2011-04-04 11:37:55,102 2242958 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:37:55,103 2242959 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:37:55,103 2242959 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:37:55,104 2242960 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:37:55,104 2242960 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:37:55,105 2242961 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:37:55,105 2242961 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:37:55,105 2242961 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:37:55,106 2242962 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:37:55,106 2242962 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@1ca1255,Image:0 2011-04-04 11:37:55,107 2242963 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@84336b,omero.model.OriginalFile:0 2011-04-04 11:37:55,107 2242963 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@159e37e,Pixels:0 2011-04-04 11:37:55,107 2242963 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@edc0e0,Channel:0:0 2011-04-04 11:37:55,108 2242964 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@1e43267,Channel:0:1 2011-04-04 11:37:55,108 2242964 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@46f00b,Channel:0:2 2011-04-04 11:37:55,109 2242965 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@1c386df,omero.model.FileAnnotation:0:0 2011-04-04 11:37:55,109 2242965 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@7aa43b,omero.model.LogicalChannel:0:0 2011-04-04 11:37:55,110 2242966 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@696e9e,omero.model.LogicalChannel:0:1 2011-04-04 11:37:55,110 2242966 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@ddea7f,omero.model.LogicalChannel:0:2 2011-04-04 11:37:55,110 2242966 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:37:55,111 2242967 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:37:55,111 2242967 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:753 2011-04-04 11:37:55,112 2242968 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:37:55,112 2242968 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:37:55,113 2242969 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:37:55,164 2243020 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7925 2011-04-04 11:37:55,178 2243034 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:37:55,184 2243040 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:37:55,458 2243314 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:37:55,738 2243594 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:37:55,999 2243855 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:37:56,000 2243856 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:37:56,456 2244312 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:37:56,457 2244313 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:37:56,612 2244468 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:37:56,613 2244469 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:37:56,623 2244479 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:38:07,966 2255822 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:38:07,967 2255823 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 001_1_001.ome - Copy (8).tif 2011-04-04 11:38:11,308 2259164 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.OMETiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (8).tif) 2011-04-04 11:38:11,308 2259164 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:38:11,333 2259189 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: OMETiff 2011-04-04 11:38:11,334 2259190 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: OMETiff 2011-04-04 11:38:11,339 2259195 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:38:11,340 2259196 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:38:11,341 2259197 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:38:11,345 2259201 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYZCT 2011-04-04 11:38:11,348 2259204 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:38:11,353 2259209 [2-thread-1] DEBUG loci.formats.FormatHandler - Image[0] { 2011-04-04 11:38:11,353 2259209 [2-thread-1] DEBUG loci.formats.FormatHandler - id = urn:lsid:export.openmicroscopy.org:Image:51c3a594-2ec4-449b-a9a9-cdfde6d51ecd_4578:31364 2011-04-04 11:38:11,354 2259210 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[0] { 2011-04-04 11:38:11,354 2259210 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[0]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (8).tif, IFD=0 2011-04-04 11:38:11,354 2259210 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: CLEARED 2011-04-04 11:38:11,354 2259210 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: CLEARED 2011-04-04 11:38:11,354 2259210 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:38:11,354 2259210 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[1] { 2011-04-04 11:38:11,355 2259211 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (8).tif, IFD=1 2011-04-04 11:38:11,355 2259211 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: CLEARED 2011-04-04 11:38:11,355 2259211 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:38:11,355 2259211 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[2] { 2011-04-04 11:38:11,356 2259212 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (8).tif, IFD=2 2011-04-04 11:38:11,356 2259212 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:38:11,356 2259212 [2-thread-1] DEBUG loci.formats.FormatHandler - -------------------------------- 2011-04-04 11:38:11,356 2259212 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[0]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (8).tif, IFD=0 2011-04-04 11:38:11,356 2259212 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (8).tif, IFD=1 2011-04-04 11:38:11,356 2259212 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (8).tif, IFD=2 2011-04-04 11:38:11,356 2259212 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:38:11,357 2259213 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:38:11,357 2259213 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:38:11,357 2259213 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:38:11,357 2259213 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:38:11,357 2259213 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:38:11,358 2259214 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:38:11,358 2259214 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:38:11,358 2259214 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:38:11,358 2259214 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:38:11,358 2259214 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:38:11,358 2259214 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:38:11,359 2259215 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:38:11,363 2259219 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.MinimalTiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (8).tif) 2011-04-04 11:38:11,365 2259221 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:38:11,419 2259275 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:38:11,422 2259278 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:38:11,423 2259279 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:38:11,423 2259279 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:38:11,423 2259279 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:38:11,423 2259279 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:38:11,423 2259279 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:38:11,423 2259279 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:38:11,423 2259279 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:38:11,423 2259279 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:38:11,423 2259279 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:38:11,424 2259280 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:38:11,424 2259280 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:38:11,428 2259284 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:38:11,435 2259291 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 001_1_001.ome - Copy (8).tif 2011-04-04 11:38:11,436 2259292 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:38:11,442 2259298 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:38:11,443 2259299 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:38:11,443 2259299 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:38:11,444 2259300 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:38:11,444 2259300 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:38:11,444 2259300 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 001_1_001.ome - Copy (8).tif 2011-04-04 11:38:11,445 2259301 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:38:11,445 2259301 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:38:11,446 2259302 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:38:11,446 2259302 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:38:11,446 2259302 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:38:11,447 2259303 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:38:11,452 2259308 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:38:11,452 2259308 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:38:11,453 2259309 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:38:11,454 2259310 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@4406b8,Image:0 2011-04-04 11:38:11,454 2259310 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@3233ac,omero.model.OriginalFile:0 2011-04-04 11:38:11,454 2259310 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@14ce93e,Pixels:0 2011-04-04 11:38:11,455 2259311 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@1313905,Channel:0:0 2011-04-04 11:38:11,455 2259311 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@2c0b34,Channel:0:1 2011-04-04 11:38:11,456 2259312 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@1558d83,Channel:0:2 2011-04-04 11:38:11,456 2259312 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@4473c,omero.model.FileAnnotation:0:0 2011-04-04 11:38:11,457 2259313 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@456d5d,omero.model.LogicalChannel:0:0 2011-04-04 11:38:11,457 2259313 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@13ae506,omero.model.LogicalChannel:0:1 2011-04-04 11:38:11,457 2259313 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@1fb49f6,omero.model.LogicalChannel:0:2 2011-04-04 11:38:11,458 2259314 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:38:11,458 2259314 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:38:11,458 2259314 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:753 2011-04-04 11:38:11,459 2259315 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:38:11,459 2259315 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:38:11,460 2259316 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:38:11,511 2259367 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7926 2011-04-04 11:38:11,523 2259379 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:38:11,528 2259384 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:38:11,801 2259657 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:38:12,086 2259942 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:38:12,362 2260218 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:38:12,363 2260219 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:38:12,844 2260700 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:38:12,845 2260701 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:38:12,997 2260853 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:38:12,997 2260853 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:38:13,011 2260867 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:38:24,378 2272234 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:38:24,379 2272235 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 001_1_001.ome - Copy (9).tif 2011-04-04 11:38:27,716 2275572 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.OMETiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (9).tif) 2011-04-04 11:38:27,717 2275573 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:38:27,742 2275598 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: OMETiff 2011-04-04 11:38:27,744 2275600 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: OMETiff 2011-04-04 11:38:27,744 2275600 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:38:27,745 2275601 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:38:27,746 2275602 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:38:27,747 2275603 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYZCT 2011-04-04 11:38:27,747 2275603 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:38:27,749 2275605 [2-thread-1] DEBUG loci.formats.FormatHandler - Image[0] { 2011-04-04 11:38:27,749 2275605 [2-thread-1] DEBUG loci.formats.FormatHandler - id = urn:lsid:export.openmicroscopy.org:Image:51c3a594-2ec4-449b-a9a9-cdfde6d51ecd_4578:31364 2011-04-04 11:38:27,749 2275605 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[0] { 2011-04-04 11:38:27,750 2275606 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[0]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (9).tif, IFD=0 2011-04-04 11:38:27,750 2275606 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: CLEARED 2011-04-04 11:38:27,750 2275606 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: CLEARED 2011-04-04 11:38:27,750 2275606 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:38:27,750 2275606 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[1] { 2011-04-04 11:38:27,751 2275607 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (9).tif, IFD=1 2011-04-04 11:38:27,751 2275607 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: CLEARED 2011-04-04 11:38:27,751 2275607 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:38:27,751 2275607 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[2] { 2011-04-04 11:38:27,752 2275608 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (9).tif, IFD=2 2011-04-04 11:38:27,752 2275608 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:38:27,752 2275608 [2-thread-1] DEBUG loci.formats.FormatHandler - -------------------------------- 2011-04-04 11:38:27,752 2275608 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[0]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (9).tif, IFD=0 2011-04-04 11:38:27,752 2275608 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (9).tif, IFD=1 2011-04-04 11:38:27,752 2275608 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (9).tif, IFD=2 2011-04-04 11:38:27,752 2275608 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:38:27,753 2275609 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:38:27,753 2275609 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:38:27,753 2275609 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:38:27,753 2275609 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:38:27,753 2275609 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:38:27,753 2275609 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:38:27,753 2275609 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:38:27,753 2275609 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:38:27,754 2275610 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:38:27,754 2275610 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:38:27,754 2275610 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:38:27,754 2275610 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:38:27,760 2275616 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.MinimalTiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy (9).tif) 2011-04-04 11:38:27,763 2275619 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:38:27,834 2275690 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:38:27,844 2275700 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:38:27,844 2275700 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:38:27,844 2275700 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:38:27,844 2275700 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:38:27,845 2275701 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:38:27,845 2275701 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:38:27,845 2275701 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:38:27,845 2275701 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:38:27,846 2275702 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:38:27,846 2275702 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:38:27,846 2275702 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:38:27,846 2275702 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:38:27,849 2275705 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:38:27,853 2275709 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 001_1_001.ome - Copy (9).tif 2011-04-04 11:38:27,857 2275713 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:38:27,862 2275718 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:38:27,863 2275719 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:38:27,863 2275719 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:38:27,864 2275720 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:38:27,864 2275720 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:38:27,864 2275720 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 001_1_001.ome - Copy (9).tif 2011-04-04 11:38:27,865 2275721 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:38:27,865 2275721 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:38:27,866 2275722 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:38:27,866 2275722 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:38:27,866 2275722 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:38:27,867 2275723 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:38:27,872 2275728 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:38:27,872 2275728 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:38:27,873 2275729 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:38:27,874 2275730 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@9dc6db,Image:0 2011-04-04 11:38:27,874 2275730 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@1bc2c97,omero.model.OriginalFile:0 2011-04-04 11:38:27,875 2275731 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@1c200d0,Pixels:0 2011-04-04 11:38:27,876 2275732 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@306dfe,Channel:0:0 2011-04-04 11:38:27,876 2275732 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@a71b2e,Channel:0:1 2011-04-04 11:38:27,877 2275733 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@1f46631,Channel:0:2 2011-04-04 11:38:27,877 2275733 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@121304c,omero.model.FileAnnotation:0:0 2011-04-04 11:38:27,878 2275734 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@20ac02,omero.model.LogicalChannel:0:0 2011-04-04 11:38:27,878 2275734 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@4eb331,omero.model.LogicalChannel:0:1 2011-04-04 11:38:27,879 2275735 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@1d7e9cb,omero.model.LogicalChannel:0:2 2011-04-04 11:38:27,879 2275735 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:38:27,880 2275736 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:38:27,880 2275736 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:753 2011-04-04 11:38:27,880 2275736 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:38:27,881 2275737 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:38:27,881 2275737 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:38:27,932 2275788 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7927 2011-04-04 11:38:27,950 2275806 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:38:27,957 2275813 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:38:28,307 2276163 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:38:28,571 2276427 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:38:28,824 2276680 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:38:28,824 2276680 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:38:29,308 2277164 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:38:29,309 2277165 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:38:29,461 2277317 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:38:29,462 2277318 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:38:29,471 2277327 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:38:40,773 2288629 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:38:40,773 2288629 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 001_1_001.ome - Copy.tif 2011-04-04 11:38:43,917 2291773 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.OMETiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy.tif) 2011-04-04 11:38:43,917 2291773 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:38:43,947 2291803 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: OMETiff 2011-04-04 11:38:43,948 2291804 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: OMETiff 2011-04-04 11:38:43,952 2291808 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:38:43,953 2291809 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:38:43,955 2291811 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:38:43,956 2291812 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYZCT 2011-04-04 11:38:43,959 2291815 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:38:43,965 2291821 [2-thread-1] DEBUG loci.formats.FormatHandler - Image[0] { 2011-04-04 11:38:43,965 2291821 [2-thread-1] DEBUG loci.formats.FormatHandler - id = urn:lsid:export.openmicroscopy.org:Image:51c3a594-2ec4-449b-a9a9-cdfde6d51ecd_4578:31364 2011-04-04 11:38:43,965 2291821 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[0] { 2011-04-04 11:38:43,966 2291822 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[0]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy.tif, IFD=0 2011-04-04 11:38:43,966 2291822 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: CLEARED 2011-04-04 11:38:43,966 2291822 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: CLEARED 2011-04-04 11:38:43,966 2291822 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:38:43,966 2291822 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[1] { 2011-04-04 11:38:43,967 2291823 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy.tif, IFD=1 2011-04-04 11:38:43,967 2291823 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: CLEARED 2011-04-04 11:38:43,967 2291823 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:38:43,967 2291823 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[2] { 2011-04-04 11:38:43,967 2291823 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy.tif, IFD=2 2011-04-04 11:38:43,967 2291823 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:38:43,967 2291823 [2-thread-1] DEBUG loci.formats.FormatHandler - -------------------------------- 2011-04-04 11:38:43,967 2291823 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[0]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy.tif, IFD=0 2011-04-04 11:38:43,967 2291823 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy.tif, IFD=1 2011-04-04 11:38:43,967 2291823 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy.tif, IFD=2 2011-04-04 11:38:43,968 2291824 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:38:43,969 2291825 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:38:43,969 2291825 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:38:43,969 2291825 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:38:43,969 2291825 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:38:43,969 2291825 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:38:43,969 2291825 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:38:43,970 2291826 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:38:43,970 2291826 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:38:43,970 2291826 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:38:43,970 2291826 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:38:43,970 2291826 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:38:43,971 2291827 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:38:43,975 2291831 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.MinimalTiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome - Copy.tif) 2011-04-04 11:38:43,977 2291833 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:38:44,032 2291888 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:38:44,036 2291892 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:38:44,036 2291892 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:38:44,036 2291892 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:38:44,036 2291892 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:38:44,036 2291892 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:38:44,036 2291892 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:38:44,036 2291892 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:38:44,037 2291893 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:38:44,037 2291893 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:38:44,037 2291893 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:38:44,037 2291893 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:38:44,038 2291894 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:38:44,041 2291897 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:38:44,045 2291901 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 001_1_001.ome - Copy.tif 2011-04-04 11:38:44,049 2291905 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:38:44,055 2291911 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:38:44,056 2291912 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:38:44,056 2291912 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:38:44,057 2291913 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:38:44,057 2291913 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:38:44,057 2291913 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 001_1_001.ome - Copy.tif 2011-04-04 11:38:44,058 2291914 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:38:44,058 2291914 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:38:44,059 2291915 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:38:44,059 2291915 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:38:44,060 2291916 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:38:44,061 2291917 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:38:44,065 2291921 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:38:44,065 2291921 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:38:44,066 2291922 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:38:44,066 2291922 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@9d44e9,Image:0 2011-04-04 11:38:44,067 2291923 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@e37977,omero.model.OriginalFile:0 2011-04-04 11:38:44,067 2291923 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@4ed19b,Pixels:0 2011-04-04 11:38:44,068 2291924 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@115a64b,Channel:0:0 2011-04-04 11:38:44,068 2291924 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@86894b,Channel:0:1 2011-04-04 11:38:44,068 2291924 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@b6e46,Channel:0:2 2011-04-04 11:38:44,069 2291925 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@e5a606,omero.model.FileAnnotation:0:0 2011-04-04 11:38:44,069 2291925 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1bae785,omero.model.LogicalChannel:0:0 2011-04-04 11:38:44,070 2291926 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@dd559b,omero.model.LogicalChannel:0:1 2011-04-04 11:38:44,070 2291926 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@716b8f,omero.model.LogicalChannel:0:2 2011-04-04 11:38:44,071 2291927 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:38:44,071 2291927 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:38:44,072 2291928 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:753 2011-04-04 11:38:44,072 2291928 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:38:44,072 2291928 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:38:44,073 2291929 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:38:44,123 2291979 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7928 2011-04-04 11:38:44,136 2291992 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:38:44,143 2291999 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:38:44,406 2292262 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:38:44,688 2292544 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:38:44,935 2292791 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:38:44,941 2292797 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:38:44,942 2292798 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:38:45,417 2293273 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:38:45,418 2293274 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:38:45,584 2293440 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:38:45,585 2293441 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:38:45,596 2293452 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:38:56,965 2304821 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Metadata only import? false 2011-04-04 11:38:56,966 2304822 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADING_IMAGE: 001_1_001.ome.tif 2011-04-04 11:39:00,166 2308022 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.OMETiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome.tif) 2011-04-04 11:39:00,166 2308022 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:39:00,188 2308044 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: OMETiff 2011-04-04 11:39:00,190 2308046 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.Format exact match for: OMETiff 2011-04-04 11:39:00,193 2308049 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:39:00,201 2308057 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:39:00,202 2308058 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PhotometricInterpretation exact match for: Monochrome 2011-04-04 11:39:00,206 2308062 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYZCT 2011-04-04 11:39:00,210 2308066 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:39:00,215 2308071 [2-thread-1] DEBUG loci.formats.FormatHandler - Image[0] { 2011-04-04 11:39:00,215 2308071 [2-thread-1] DEBUG loci.formats.FormatHandler - id = urn:lsid:export.openmicroscopy.org:Image:51c3a594-2ec4-449b-a9a9-cdfde6d51ecd_4578:31364 2011-04-04 11:39:00,215 2308071 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[0] { 2011-04-04 11:39:00,216 2308072 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[0]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome.tif, IFD=0 2011-04-04 11:39:00,216 2308072 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: CLEARED 2011-04-04 11:39:00,216 2308072 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: CLEARED 2011-04-04 11:39:00,216 2308072 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:39:00,216 2308072 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[1] { 2011-04-04 11:39:00,217 2308073 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome.tif, IFD=1 2011-04-04 11:39:00,217 2308073 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: CLEARED 2011-04-04 11:39:00,217 2308073 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:39:00,217 2308073 [2-thread-1] DEBUG loci.formats.FormatHandler - TiffData[2] { 2011-04-04 11:39:00,218 2308074 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome.tif, IFD=2 2011-04-04 11:39:00,218 2308074 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:39:00,218 2308074 [2-thread-1] DEBUG loci.formats.FormatHandler - -------------------------------- 2011-04-04 11:39:00,218 2308074 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[0]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome.tif, IFD=0 2011-04-04 11:39:00,218 2308074 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[1]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome.tif, IFD=1 2011-04-04 11:39:00,218 2308074 [2-thread-1] DEBUG loci.formats.FormatHandler - Plane[2]: file=C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome.tif, IFD=2 2011-04-04 11:39:00,218 2308074 [2-thread-1] DEBUG loci.formats.FormatHandler - } 2011-04-04 11:39:00,218 2308074 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:39:00,218 2308074 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:39:00,219 2308075 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:39:00,219 2308075 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:39:00,219 2308075 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:39:00,219 2308075 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:39:00,219 2308075 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:39:00,219 2308075 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:39:00,219 2308075 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:39:00,219 2308075 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:39:00,220 2308076 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:39:00,220 2308076 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:39:00,225 2308081 [2-thread-1] DEBUG loci.formats.FormatHandler - loci.formats.in.MinimalTiffReader.initFile(C:\Users\bhcho\BK at CMU\Working table\OME_XML\PerformanceTest\images\001_1_001.ome.tif) 2011-04-04 11:39:00,241 2308097 [2-thread-1] INFO loci.formats.FormatHandler - Reading IFDs 2011-04-04 11:39:00,295 2308151 [2-thread-1] INFO loci.formats.FormatHandler - Populating metadata 2011-04-04 11:39:00,299 2308155 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Loaded properties from: services.properties 2011-04-04 11:39:00,299 2308155 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.JAIIIOService and implementation class loci.formats.services.JAIIIOServiceImpl 2011-04-04 11:39:00,299 2308155 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.NetCDFService and implementation class loci.formats.services.NetCDFServiceImpl 2011-04-04 11:39:00,299 2308155 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.POIService and implementation class loci.formats.services.POIServiceImpl 2011-04-04 11:39:00,299 2308155 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.LuraWaveService and implementation class loci.formats.services.LuraWaveServiceImpl 2011-04-04 11:39:00,300 2308156 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing interface: loci.ome.io.services.OMEReaderWriterService 2011-04-04 11:39:00,300 2308156 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.OMEXMLService and implementation class loci.formats.services.OMEXMLServiceImpl 2011-04-04 11:39:00,300 2308156 [2-thread-1] DEBUG loci.common.services.ServiceFactory - CLASSPATH missing implementation or implementation dependency: loci.ome.notes.services.OMENotesServiceImpl 2011-04-04 11:39:00,300 2308156 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.common.services.OMENotesService and implementation null 2011-04-04 11:39:00,300 2308156 [2-thread-1] DEBUG loci.common.services.ServiceFactory - Added interface interface loci.formats.services.MDBService and implementation class loci.formats.services.MDBServiceImpl 2011-04-04 11:39:00,301 2308157 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.PixelsType exact match for: uint8 2011-04-04 11:39:00,301 2308157 [2-thread-1] DEBUG ome.formats.enums.IQueryEnumProvider - Returning class omero.model.DimensionOrder exact match for: XYCZT 2011-04-04 11:39:00,305 2308161 [2-thread-1] DEBUG ome.formats.importer.ImportLibrary - Image Count: 3 2011-04-04 11:39:00,309 2308165 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - LOADED_IMAGE: 001_1_001.ome.tif 2011-04-04 11:39:00,313 2308169 [2-thread-1] INFO ome.formats.importer.ImportLibrary - Reader is not of HCS domain, use metafile: true 2011-04-04 11:39:00,325 2308181 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile created 2011-04-04 11:39:00,329 2308185 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - originalFile path created 2011-04-04 11:39:00,330 2308186 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_POST_PROCESS 2011-04-04 11:39:00,330 2308186 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate name: null 2011-04-04 11:39:00,330 2308186 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified plate description: null 2011-04-04 11:39:00,331 2308187 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image name: 001_1_001.ome.tif 2011-04-04 11:39:00,331 2308187 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Using user specified image description: null 2011-04-04 11:39:00,332 2308188 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - isGraphicsDomain: false 2011-04-04 11:39:00,332 2308188 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:39:00,333 2308189 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:39:00,333 2308189 [2-thread-1] DEBUG ome.formats.model.ChannelProcessor - Already set in BF. 2011-04-04 11:39:00,334 2308190 [2-thread-1] WARN ome.formats.model.ReferenceProcessor - Unknown target class for LSID: Image:0 2011-04-04 11:39:00,334 2308190 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_POST_PROCESS 2011-04-04 11:39:00,334 2308190 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - BEGIN_SAVE_TO_DB 2011-04-04 11:39:00,335 2308191 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting containers.... 2011-04-04 11:39:00,336 2308192 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Image:0 == omero.model.ImageI@b94819,Image:0 2011-04-04 11:39:00,336 2308192 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.OriginalFile:0 == omero.model.OriginalFileI@1978a17,omero.model.OriginalFile:0 2011-04-04 11:39:00,337 2308193 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Pixels:0 == omero.model.PixelsI@1104764,Pixels:0 2011-04-04 11:39:00,337 2308193 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:0 == omero.model.ChannelI@99010e,Channel:0:0 2011-04-04 11:39:00,338 2308194 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:1 == omero.model.ChannelI@1523ccf,Channel:0:1 2011-04-04 11:39:00,338 2308194 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.Channel:0:2 == omero.model.ChannelI@ab94fd,Channel:0:2 2011-04-04 11:39:00,339 2308195 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.FileAnnotationI@1a663bb,omero.model.FileAnnotation:0:0 2011-04-04 11:39:00,339 2308195 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:0 == omero.model.LogicalChannelI@1edfb80,omero.model.LogicalChannel:0:0 2011-04-04 11:39:00,340 2308196 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:1 == omero.model.LogicalChannelI@f3cd97,omero.model.LogicalChannel:0:1 2011-04-04 11:39:00,340 2308196 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.LogicalChannel:0:2 == omero.model.LogicalChannelI@eaed8d,omero.model.LogicalChannel:0:2 2011-04-04 11:39:00,341 2308197 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Starting references.... 2011-04-04 11:39:00,341 2308197 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.FileAnnotation:0:0 2011-04-04 11:39:00,342 2308198 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Image:0 == omero.model.DatasetI:753 2011-04-04 11:39:00,342 2308198 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - omero.model.FileAnnotation:0:0 == omero.model.OriginalFile:0 2011-04-04 11:39:00,343 2308199 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - containerCache contains 10 entries. 2011-04-04 11:39:00,343 2308199 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - referenceCache contains 3 entries. 2011-04-04 11:39:00,394 2308250 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Saved Pixels with ID: 7929 2011-04-04 11:39:00,407 2308263 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - END_SAVE_TO_DB 2011-04-04 11:39:00,414 2308270 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATASET_STORED 2011-04-04 11:39:00,680 2308536 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 1 Series: 0 Total Series: 1 2011-04-04 11:39:00,939 2308795 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 2 Series: 0 Total Series: 1 2011-04-04 11:39:01,194 2309050 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_STEP Image: 3 Series: 0 Total Series: 1 2011-04-04 11:39:01,195 2309051 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - DATA_STORED 2011-04-04 11:39:01,696 2309552 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_OVERLAYS 2011-04-04 11:39:01,697 2309553 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_THUMBNAILING 2011-04-04 11:39:01,868 2309724 [2-thread-1] INFO ormats.importer.gui.LoggingImportMonitor - IMPORT_DONE 2011-04-04 11:39:01,869 2309725 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:39:01,873 2309729 [2-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - Creating root! 2011-04-04 11:39:44,935 2352791 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:40:44,933 2412789 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:41:44,933 2472789 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:42:44,932 2532788 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:43:44,931 2592787 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:44:44,930 2652786 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:45:44,929 2712785 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:46:44,928 2772784 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:47:44,928 2832784 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:48:44,929 2892785 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:49:44,930 2952786 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:50:44,929 3012785 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:51:44,928 3072784 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:52:44,927 3132783 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:53:44,926 3192782 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:54:44,925 3252781 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:55:44,924 3312780 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:56:44,922 3372778 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:57:44,922 3432778 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:58:44,921 3492777 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 11:59:44,920 3552776 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:00:44,919 3612775 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:01:44,918 3672774 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:02:44,917 3732773 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:03:44,916 3792772 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:04:44,915 3852771 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:05:44,915 3912771 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:06:44,914 3972770 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:07:44,914 4032770 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:08:44,913 4092769 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:09:44,912 4152768 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:10:44,911 4212767 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:11:44,910 4272766 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:12:44,908 4332764 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:13:44,907 4392763 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:14:44,906 4452762 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:15:44,905 4512761 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:16:44,904 4572760 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:17:47,404 4635260 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:18:47,403 4695259 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:19:47,403 4755259 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:20:47,402 4815258 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:21:47,402 4875258 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:22:47,402 4935258 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:23:47,401 4995257 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:24:47,402 5055258 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:25:47,402 5115258 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:26:47,402 5175258 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:27:47,401 5235257 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:28:47,402 5295258 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:29:47,402 5355258 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:30:47,403 5415259 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:31:47,403 5475259 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:32:47,403 5535259 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:33:47,403 5595259 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:34:47,403 5655259 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:35:47,402 5715258 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:36:47,405 5775261 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:37:47,404 5835260 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:38:47,405 5895261 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:39:47,412 5955268 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:40:47,443 6015299 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:41:47,456 6075312 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:42:47,485 6135341 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:43:47,485 6195341 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:44:47,485 6255341 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:45:47,483 6315339 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:46:47,490 6375346 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:47:50,097 6437953 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:48:50,106 6497962 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:49:50,111 6557967 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:50:50,115 6617971 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:51:50,116 6677972 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:52:50,114 6737970 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:53:50,113 6797969 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:54:50,113 6857969 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:55:50,112 6917968 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:56:50,111 6977967 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:57:50,110 7037966 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:58:50,109 7097965 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 12:59:50,107 7157963 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 13:00:50,105 7217961 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 13:01:50,104 7277960 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 13:02:50,102 7337958 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 13:03:50,101 7397957 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 13:04:50,100 7457956 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 13:05:50,099 7517955 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 13:06:50,098 7577954 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 13:07:50,097 7637953 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 13:08:50,096 7697952 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 13:09:50,097 7757953 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 13:10:50,095 7817951 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 13:11:50,095 7877951 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 13:12:50,098 7937954 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 13:13:50,098 7997954 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 13:14:50,098 8057954 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 13:15:50,097 8117953 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 13:16:50,095 8177951 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 13:17:52,595 8240451 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 13:18:52,595 8300451 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 13:19:52,593 8360449 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 13:20:52,592 8420448 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 13:21:52,592 8480448 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 13:22:52,591 8540447 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 13:23:52,592 8600448 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 13:24:52,591 8660447 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 13:25:52,590 8720446 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 13:26:52,589 8780445 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 13:27:52,588 8840444 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 13:28:52,588 8900444 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 13:29:52,588 8960444 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 13:30:52,587 9020443 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 13:31:52,586 9080442 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 13:32:52,585 9140441 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 13:33:52,584 9200440 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 13:34:52,583 9260439 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 13:35:52,583 9320439 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 13:36:52,583 9380439 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 13:37:52,582 9440438 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 13:38:52,581 9500437 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 13:39:52,581 9560437 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 13:40:52,586 9620442 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 13:41:52,586 9680442 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 13:42:52,586 9740442 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 13:43:52,585 9800441 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 13:44:52,584 9860440 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 13:45:52,583 9920439 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 13:46:52,582 9980438 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 13:47:55,582 10043438 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 13:48:55,582 10103438 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 13:49:55,581 10163437 [4-thread-1] DEBUG ome.formats.OMEROMetadataStoreClient - KeepAlive ping. 2011-04-04 13:50:37,983 10205839 [ Thread-2] DEBUG ome.formats.importer.gui.GuiImporter - Running shutdown hook. 2011-04-04 13:50:37,985 10205841 [ Thread-2] DEBUG ome.formats.importer.gui.GuiImporter - Shutdown called 2011-04-04 13:50:38,034 10205890 [ Thread-2] WARN ome.formats.OMEROMetadataStoreClient - Exception closing "28ab5845-d9e3-4b11-84f6-f7efc20f5582/80:2:cf:74:7919e9b4:12f02c8f74e:-7de8omero.api.RawFileStore" -t:tcp -h 128.2.207.116 -p 57201 2011-04-04 13:50:38,035 10205891 [ Thread-2] DEBUG ome.formats.OMEROMetadataStoreClient - Ice.CommunicatorDestroyedException 2011-04-04 13:50:38,500 10206356 [ Thread-2] WARN ome.formats.OMEROMetadataStoreClient - Exception closing "28ab5845-d9e3-4b11-84f6-f7efc20f5582/80:2:cf:74:7919e9b4:12f02c8f74e:-7de7omero.api.RawPixelsStore" -t:tcp -h 128.2.207.116 -p 57201 2011-04-04 13:50:38,501 10206357 [ Thread-2] DEBUG ome.formats.OMEROMetadataStoreClient - Ice.CommunicatorDestroyedException 2011-04-04 13:50:38,502 10206358 [ Thread-2] WARN ome.formats.OMEROMetadataStoreClient - Exception closing "28ab5845-d9e3-4b11-84f6-f7efc20f5582/80:2:cf:74:7919e9b4:12f02c8f74e:-7de6omero.api.ThumbnailStore" -t:tcp -h 128.2.207.116 -p 57201 2011-04-04 13:50:38,503 10206359 [ Thread-2] DEBUG ome.formats.OMEROMetadataStoreClient - Ice.CommunicatorDestroyedException 2011-04-04 13:50:38,503 10206359 [ Thread-2] WARN ome.formats.OMEROMetadataStoreClient - Exception closing 28ab5845-d9e3-4b11-84f6-f7efc20f5582/7adf55b1-b407-40ef-bcee-9a17d0cd10d3omero.api.MetadataStore -t:tcp -h 128.2.207.116 -p 57201 2011-04-04 13:50:38,504 10206360 [ Thread-2] DEBUG ome.formats.OMEROMetadataStoreClient - Ice.CommunicatorDestroyedException 2011-04-04 13:50:38,505 10206361 [ Thread-2] DEBUG ome.formats.OMEROMetadataStoreClient - closing client session. 2011-04-04 13:50:38,506 10206362 [ Thread-2] DEBUG ome.formats.OMEROMetadataStoreClient - client closed. 2011-04-04 13:50:38,506 10206362 [ Thread-2] DEBUG ome.formats.OMEROMetadataStoreClient - Logout called, shutting keep alive down. 2011-04-04 13:50:38,507 10206363 [ Thread-2] DEBUG ome.formats.OMEROMetadataStoreClient - keepalive shut down. 2011-04-04 13:50:38,541 10206397 [ Thread-2] DEBUG ome.formats.importer.ImportConfig - Freshly saved savedProject to User Preference Node: /ome/formats/importer 2011-04-04 13:50:38,542 10206398 [ Thread-2] DEBUG ome.formats.importer.ImportConfig - Freshly saved savedDataset to User Preference Node: /ome/formats/importer 2011-04-04 13:50:38,543 10206399 [ Thread-2] DEBUG ome.formats.importer.ImportConfig - Freshly saved savedScreen to User Preference Node: /ome/formats/importer 2011-04-04 13:50:38,545 10206401 [ Thread-2] DEBUG ome.formats.importer.ImportConfig - Freshly saved overrideImageName to User Preference Node: /ome/formats/importer 2011-04-04 13:50:38,545 10206401 [ Thread-2] DEBUG ome.formats.importer.ImportConfig - Freshly saved useFullPath to User Preference Node: /ome/formats/importer 2011-04-04 13:50:38,546 10206402 [ Thread-2] DEBUG ome.formats.importer.ImportConfig - Freshly saved numOfDirectories to User Preference Node: /ome/formats/importer 2011-04-04 13:50:38,547 10206403 [ Thread-2] DEBUG ome.formats.importer.ImportConfig - Saved savedDirectory to User Preference Node: /ome/formats/importer 2011-04-04 13:50:38,548 10206404 [ Thread-2] DEBUG ome.formats.importer.ImportConfig - Freshly saved companionFile to User Preference Node: /ome/formats/importer 2011-04-04 13:50:38,549 10206405 [ Thread-2] DEBUG ome.formats.importer.ImportConfig - Freshly saved sendLogFile to User Preference Node: /ome/formats/importer 2011-04-04 13:50:38,550 10206406 [ Thread-2] DEBUG ome.formats.importer.ImportConfig - Freshly saved sendFiles to User Preference Node: /ome/formats/importer 2011-04-04 13:50:38,551 10206407 [ Thread-2] DEBUG ome.formats.importer.ImportConfig - Freshly saved sendReport to User Preference Node: /ome/formats/importer 2011-04-04 13:50:39,461 10207317 [ Thread-2] DEBUG ome.formats.importer.ImportConfig - Saved email to User Preference Node: /ome/formats/importer 2011-04-04 13:50:39,462 10207318 [ Thread-2] DEBUG ome.formats.importer.ImportConfig - Freshly saved archive to User Preference Node: /ome/formats/importer