Open Microscopy Environment

I've tried to install everything in the default locations on Windows 2008R2 but keep having problems with the server not starting. This is the output from bin\omero admin start:

C:\omero_dist>bin\omero admin start
No descriptor given. Using etc\grid\windefault.xml
[SC] StartService FAILED 2:
The system cannot find the file specified.
Waiting on startup. Use CTRL-C to exit
.............................
Failed to startup some components after 5 minutes
Calling "stop" on remaining components
Server not running
C:\omero_dist>


This is the output from bin\omero admin diagnostics:

C:\omero_dist>bin\omero admin diagnostics
================================================================================
OMERO Diagnostics 4.3.3-00d1137e-b2894
================================================================================
Commands: java -version 1.6.0 (C:\Windows\system32\java.EXE)
Commands: python -V 2.5.6 (C:\Python25\python.EXE)
Commands: icegridnode --version 3.3.1 (C:\Ice-3.3.1\bin\icegridnode.EXE)
Commands: icegridadmin --version 3.3.1 (C:\Ice-3.3.1\bin\icegridadmin.EXE)
Commands: psql --version 9.1.1 (C:\PostgreSQL\9.1\bin\psql.EXE)

Server: icegridnode not started

Log dir: C:\omero_dist\var\log exists

Log files: Blitz-0.log n/a
Log files: DropBox.log n/a
Log files: FileServer.log n/a
Log files: Indexer-0.log n/a
Log files: MonitorServer.log n/a
Log files: OMEROweb.log 13.0 KB errors=20 warnings=0
Log files: Processor-0.log n/a
Log files: Tables-0.log n/a
Log files: TestDropBox.log n/a
Log files: Total size 0.01 MB

Error while parsing logs

Environment:OMERO_HOME=(unset)
Environment:OMERO_NODE=(unset)
Environment:OMERO_MASTER=(unset)
Environment:PATH=C:\Python25\;f:\icmhcm\proj_dir\Shared;c:\icmhcm\user_dir\product\6.5\bin;c:\icmhcm\proj_dir\Shared;C:\app\Administrator\product\11.1.0\db_1\bin;C:\Windows\system32;C:\Windows;C:\Windows\System32\Wbem;C:\Windows\System32\WindowsPowerShell\v1.0\;c:\Program Files (x86)\Microsoft SQL Server\100\Tools\Binn\;c:\Program Files (x86)\Microsoft SQL Server\100\DTS\Binn\;c:\Program Files (x86)\Microsoft SQL Server\100\Tools\Binn\VSShell\Common7\IDE\;
c:\icmhcm\user_dir\product\6.5\fusion;C:\Ice-3.3.1\bin;C:\PostgreSQL\9.1\bin
Environment:ICE_HOME=(unset)
Environment:LD_LIBRARY_PATH=(unset)
Environment:DYLD_LIBRARY_PATH=(unset)

OMERO data dir: '/OMERO' Exists? True Is writable? True
OMERO.web status... [NOT STARTED]


The OMEROweb.log file contents shows repeating instances of the following text:

Fri, 21 Oct 2011 11:00:17 root ERROR Exception while loading configuration retrying...
Traceback (most recent call last):
File "C:\omero_dist\lib\python\omeroweb\settings.py", line 76, in <module>
CONFIG_XML = omero.config.ConfigXml(CONFIG_XML)
File "C:\omero_dist\lib\python\omero\config.py", line 58, in __init__
portalocker.lock(self.lock, portalocker.LOCK_NB|portalocker.LOCK_EX)
File "C:\omero_dist\lib\python\portalocker.py", line 93, in lock
raise LockException(LockException.LOCK_FAILED, exc_value[2])
LockException: (1, 'The process cannot access the file because another process has locked a portion of the file.')


Please can anyone help with this problem?
Best regards,
Ian

Hi Ian,

daviesi123 wrote:I've tried to install everything in the default locations on Windows 2008R2 but keep having problems with the server not starting. This is the output from bin\omero admin start:

C:\omero_dist>bin\omero admin start
No descriptor given. Using etc\grid\windefault.xml
[SC] StartService FAILED 2:
The system cannot find the file specified.
Waiting on startup. Use CTRL-C to exit
.............................
Failed to startup some components after 5 minutes
Calling "stop" on remaining components
Server not running
C:\omero_dist>

This sounds like icegridnode is not available to the service user. You did add the c:\ice-3.3.1\bin directory to the system path and not the user path? (And restarted afterwards?) Further, I wonder if you need the c:\ice-3.3.1\bin\x64 directory before the c:\ice-3.3.1\bin.

If that doesn't work, you might make sure you're running the console as administrator as discussed in this thread: https://www.openmicroscopy.org/community/viewtopic.php?f=5&t=586

The OMEROweb.log file contents shows repeating instances of the following text:

Fri, 21 Oct 2011 11:00:17 root ERROR Exception while loading configuration retrying...
Traceback (most recent call last):
File "C:\omero_dist\lib\python\omeroweb\settings.py", line 76, in <module>
CONFIG_XML = omero.config.ConfigXml(CONFIG_XML)
File "C:\omero_dist\lib\python\omero\config.py", line 58, in __init__
portalocker.lock(self.lock, portalocker.LOCK_NB|portalocker.LOCK_EX)
File "C:\omero_dist\lib\python\portalocker.py", line 93, in lock
raise LockException(LockException.LOCK_FAILED, exc_value[2])
LockException: (1, 'The process cannot access the file because another process has locked a portion of the file.')

This is a result of the server not starting and can be ignored until bin\omero admin start successfully passes.

Cheers,
~Josh