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LOCI FLEX file import problem

PostPosted: Fri Sep 13, 2013 10:02 am
by een1dae
I am trying to import EVOTEC flex files into ImageJ using the LOCI package, the metadata appear to be read correctly, but the image import doesn't work. Ironically, in imageJ without the LOCI packages, the images are visible, but the metadata cannot be read. The error that is seen is a Java NPE. The same issue appears on both Windows and Mac. Can anyone help?

ImageJ 1.47v; Java 1.6.0_51 [64-bit]; Mac OS X 10.8.5; 52MB of 658MB (7%)
java.lang.NullPointerException
at loci.formats.in.FlexReader.openBytes(FlexReader.java:236)
at loci.formats.ImageReader.openBytes(ImageReader.java:416)
at loci.formats.ReaderWrapper.openBytes(ReaderWrapper.java:320)
at loci.formats.DimensionSwapper.openBytes(DimensionSwapper.java:258)
at loci.formats.FileStitcher.openBytes(FileStitcher.java:475)
at loci.formats.ChannelFiller.openBytes(ChannelFiller.java:197)
at loci.formats.ChannelSeparator.openBytes(ChannelSeparator.java:226)
at loci.formats.ChannelSeparator.openBytes(ChannelSeparator.java:159)
at loci.formats.ReaderWrapper.openBytes(ReaderWrapper.java:308)
at loci.formats.DimensionSwapper.openBytes(DimensionSwapper.java:244)
at loci.formats.ReaderWrapper.openBytes(ReaderWrapper.java:308)
at loci.formats.ReaderWrapper.openBytes(ReaderWrapper.java:308)
at loci.plugins.util.ImageProcessorReader.openProcessors(ImageProcessorReader.java:190)
at loci.plugins.in.ImagePlusReader.readProcessors(ImagePlusReader.java:416)
at loci.plugins.in.ImagePlusReader.readPlanes(ImagePlusReader.java:380)
at loci.plugins.in.ImagePlusReader.readImage(ImagePlusReader.java:277)
at loci.plugins.in.ImagePlusReader.readImages(ImagePlusReader.java:238)
at loci.plugins.in.ImagePlusReader.readImages(ImagePlusReader.java:216)
at loci.plugins.in.ImagePlusReader.openImagePlus(ImagePlusReader.java:114)
at loci.plugins.in.Importer.readPixels(Importer.java:150)
at loci.plugins.in.Importer.run(Importer.java:89)
at loci.plugins.LociImporter.run(LociImporter.java:81)
at ij.IJ.runUserPlugIn(IJ.java:195)
at ij.IJ.runPlugIn(IJ.java:160)
at ij.IJ.runPlugIn(IJ.java:149)
at HandleExtraFileTypes.openImage(HandleExtraFileTypes.java:258)
at HandleExtraFileTypes.run(HandleExtraFileTypes.java:37)
at ij.IJ.runUserPlugIn(IJ.java:195)
at ij.IJ.runPlugIn(IJ.java:160)
at ij.IJ.runPlugIn(IJ.java:149)
at ij.io.Opener.openWithHandleExtraFileTypes(Opener.java:438)
at ij.io.Opener.openImage(Opener.java:310)
at ij.io.Opener.openImage(Opener.java:333)
at ij.io.Opener.open(Opener.java:143)
at ij.io.Opener.open(Opener.java:70)
at ij.plugin.Commands.run(Commands.java:27)
at ij.IJ.runPlugIn(IJ.java:166)
at ij.Executer.runCommand(Executer.java:128)
at ij.Executer.run(Executer.java:64)
at java.lang.Thread.run(Thread.java:680)

Re: LOCI FLEX file import problem

PostPosted: Sun Sep 15, 2013 3:42 pm
by mlinkert
Could you please indicate which version of Bio-Formats you have installed? Selecting "Help > About Plugins > LOCI Plugins" should show the version number and date.