Bug 1176 – Bio-Formats extensions cause exception in macro

Bug 1176 - Bio-Formats extensions cause exception in macro


Summary:	Bio-Formats extensions cause exception in macro

Status:	RESOLVED INVALID

Product:	Fiji
Classification:	Unclassified
Component:	Plugins
Version:	unspecified
Hardware:	PC Windows

Importance:	P4 normal
Assigned To:	ImageJ Bugs Mailing List

URL:

Depends on:
Blocks:

Reported:	2015-10-15 07:43 CDT by Jan Brocher
Modified:	2015-10-15 07:53 CDT
CC List:	1 user (show)

See Also:

Description Jan Brocher 2015-10-15 07:43:21 CDT

Using the following code in a macro causes an exception as soon as the first Ext.-command is called. 

//---------macro code -------------
run("Bio-Formats Macro Extensions");
filePath = File.openDialog("Choose a file");
Ext.setId(filePath);
Ext.getSeriesCount(seriesCount);
//---------------------------------

Happens in Fiji with IJ 2.0.0-rc39/1.50b as well as with the last life-line version of Fiji with IJ 2.0.0-rc23/1.49m.

Information about your version of Java:

  os.arch => amd64
  os.name => Windows 7
  os.version => 6.1
  java.version => 1.6.0_24
  java.vendor => Sun Microsystems Inc.
  java.runtime.name => Java(TM) SE Runtime Environment
  java.runtime.version => 1.6.0_24-b07
  java.vm.name => Java HotSpot(TM) 64-Bit Server VM
  java.vm.version => 19.1-b02
  java.vm.vendor => Sun Microsystems Inc.
  java.vm.info => mixed mode
  java.awt.graphicsenv => sun.awt.Win32GraphicsEnvironment
  java.specification.name => Java Platform API Specification
  java.specification.version => 1.6
  sun.cpu.endian => little
  sun.desktop => windows
  file.separator => \

The up-to-date check says: CHECK_TURNED_OFF

Information relevant to JAVA_HOME related problems:

  JAVA_HOME is set to: D:\Fiji\FIJI~3.APP/java/win64/jdk1.6.0_24//jre
  imagej.dir => D:\Fiji\FIJI~3.APP

Information about the version of each plugin:

Activated update sites:
ImageJ: http://update.imagej.net/ (last check:20150915154157)
Fiji: http://update.fiji.sc/ (last check:20151013215820)
3D ImageJ Suite: http://sites.imagej.net/Tboudier/ (last check:20151008085610)
Bio-Formats: http://sites.imagej.net/Bio-Formats/ (last check:20151013032647)
Biomedgroup: http://sites.imagej.net/Biomedgroup/ (last check:20150921121108)
BioVoxxel: http://sites.imagej.net/BioVoxxel/ (last check:20150930090759)
IBMP-CNRS: http://sites.imagej.net/Mutterer/ (last check:20150917122224)
Morphology: http://sites.imagej.net/Landini/ (last check:20140723165558)

Files not up-to-date:
  52941f0a (LOCAL_ONLY) 20120724120027 images/ToolIcon.png
  f0d3a159 (LOCAL_ONLY) 20110307142230 images/icon (Fiji).png
  d9da6b9d (MODIFIED) 20120706180550 images/icon.png
  e336ae43 20150906214502 jars/CoreMem-0.1.0.jar
  ff57b624 20150903224743 jars/bridj-0.6.2.jar
  bae98096 20150906214457 jars/commons-collections-3.2.1.jar
  d290c110 20150906214457 jars/commons-io-2.4.jar
  ae7e0f71 20150906214457 jars/commons-lang-2.6.jar
  56205095 20150906214457 jars/dx-1.7.jar
  16d8cf56 20150906214500 jars/imglib-clearvolume-1.0.0.jar
  60d82998 20150906214501 jars/javacl-1.0.0-RC4.jar
  5ec928dc 20150906214501 jars/javacl-core-1.0.0-RC4.jar
  ddbf0c9b 20150903224744 jars/jcuda-6.5.jar
  e7274f57 20150906214502 jars/jcuda-maven-6.5.jar
  1e57a636 20150903224744 jars/jcufft-6.5.jar
  3404373c 20150906214501 jars/log4j-api-2.1.jar
  0d7c605a 20150906214501 jars/log4j-core-2.1.jar
  503eee3e 20150906214502 jars/miglayout-3.7.4.jar
  0fbf6832 20150906214502 jars/nativelibs4java-utils-1.6.jar
  a44e4c7d 20150906214502 jars/opencl4java-1.0.0-RC4.jar
  06d5c159 20150903224745 lib/fftw/libfftw3.dll
  b8892f16 20150903224746 lib/jcuda-6.5/JCudaDriver-windows-x86_64.dll
  52041738 20150903224746 lib/jcuda-6.5/JCudaRuntime-windows-x86_64.dll
  15a98297 20150903224746 lib/jcuda-6.5/JCufft-windows-x86_64.dll
  ef76b230 20150903224746 lib/jcuda-6.5/libJCudaDriver-apple-x86_64.dylib
  a364e921 20150903224746 lib/jcuda-6.5/libJCudaDriver-linux-x86_64.so
  e243b091 20150903224746 lib/jcuda-6.5/libJCudaRuntime-apple-x86_64.dylib
  a16bc5a3 20150903224746 lib/jcuda-6.5/libJCudaRuntime-linux-x86_64.so
  17408373 20150903224746 lib/jcuda-6.5/libJCufft-apple-x86_64.dylib
  d677c0b3 20150903224746 lib/jcuda-6.5/libJCufft-linux-x86_64.so
  13640c03 20150903224746 lib/jcuda-6.5/stitching-util-cuda-bin.ptx
  269f75a4 20150903224746 lib/jcuda-6.5/util-cuda-bin.cu
  1dd4fef0 (LOCAL_ONLY) 20151001104320 luts/LowDifference.lut
  eff0700b (LOCAL_ONLY) 20151001122222 luts/Viridis.lut
  bf34c94e (MODIFIED) 20150730095237 macros/StartupMacros.fiji.ijm
  362707f5 (LOCAL_ONLY) 20140330181216 macros/toolsets/Filter_Menu.ijm
  1e2f8875 (LOCAL_ONLY) 20120903105628 macros/toolsets/Gamma Tool.txt
  5e54fa1e (LOCAL_ONLY) 20130314141116 macros/toolsets/Multichannel and Stack Tools.txt
  b6e9506b (LOCAL_ONLY) 20130314140737 macros/toolsets/ROI Manager Tools.txt
  e3fa44e3 (LOCAL_ONLY) 20140423214721 macros/toolsets/Stack Tools.ijm
  f6ae959f (LOCAL_ONLY) 20111029210608 macros/toolsets/Toolset Creator.txt
  002fdd48 (LOCAL_ONLY) 20150812103825 macros/toolsets/Workshop_Menus.ijm
  6bc15367 (LOCAL_ONLY) 20141113193825 plugins/#AreaFraction_PerCell.ijm
  50d98078 (LOCAL_ONLY) 20141123210637 plugins/#Plaque_Macro.ijm
  98e9d47c (LOCAL_ONLY) 20151009142433 plugins/ActionBar/BioVoxxel_Forensics.ijm
  ddd48cbb (LOCAL_ONLY) 20150813175800 plugins/ActionBar/BioVoxxel_bar.ijm
  3aab6275 (LOCAL_ONLY) 20150312182926 plugins/ActionBar/analysis_bar.txt
  5d7830e9 (LOCAL_ONLY) 20140124092115 plugins/ActionBar/filters_bar.txt
  44834401 (LOCAL_ONLY) 20121220144054 plugins/ActionBar/overlay_bar.txt
  8f75b2d2 (LOCAL_ONLY) 20150312183223 plugins/ActionBar/segmentation_bar(old).txt
  d9df4ed5 (LOCAL_ONLY) 20150813181607 plugins/ActionBar/segmentation_bar.txt
  2f6a1b83 (LOCAL_ONLY) 20140124091527 plugins/ActionBar/selection_bar.txt
  13948d9d (LOCAL_ONLY) 20130721170100 plugins/ActionBar/test_bar.txt
  c95dc039 (LOCAL_ONLY) 20150313132046 plugins/ActionBar/transformation_bar.txt
  52ff6766 (LOCAL_ONLY) 20130129192442 plugins/Analyze/Create_Template.jar
  3b647140 (LOCAL_ONLY) 20140501175454 plugins/Analyze/Find_Ridges.class
  11a9c570 (LOCAL_ONLY) 20140523171626 plugins/Analyze/MultipleKymograph_.class
  0c5c3f94 (LOCAL_ONLY) 20120718080724 plugins/Analyze/PCA/Compute.class
  b3fb8490 (LOCAL_ONLY) 20120718080724 plugins/Analyze/PCA/MSA_514.class
  29275003 (LOCAL_ONLY) 20120718080518 plugins/Analyze/Volumest_20101201.jar
  12664d30 (LOCAL_ONLY) 20150427162414 plugins/BASF/Analysis_Settings.class
  43e8e914 (LOCAL_ONLY) 20150710162601 plugins/BASF/ColorThresholder_BASF$BandPlot.class
  76e9bff3 (LOCAL_ONLY) 20150710162601 plugins/BASF/ColorThresholder_BASF.class
  2c0bd08f (LOCAL_ONLY) 20150710163002 plugins/BASF/Image_Analysis.class
  893c1b6e (LOCAL_ONLY) 20140223204214 plugins/BASF/Mean_Shift.class
  58adadcb (LOCAL_ONLY) 20150427160115 plugins/BASF/ProfileManager.class
  396fd38f (LOCAL_ONLY) 20150331104654 plugins/BASF/RoiPartitioner.ijm
  746c91d4 (LOCAL_ONLY) 20140821214025 plugins/BASF/additional coding trials/Prepare_Batch_Processing.class
  555e8cd6 (LOCAL_ONLY) 20150427163316 plugins/BASF/nppBackup/Image_Analysis.class
  60896b86 (LOCAL_ONLY) 20140821172040 plugins/BASF/nppBackup/Threshold_Sections.class
  1a93eb34 (LOCAL_ONLY) 20140320091532 plugins/Binary/Adjustable_Watershed.class
  1aba3d0f (LOCAL_ONLY) 20140710132102 plugins/BioVoxxel - Development/Adaptive_Filter.class
  207a1aea (LOCAL_ONLY) 20151015122322 plugins/BioVoxxel - Development/Basic_Recursive_Filters.class
  51070a19 (LOCAL_ONLY) 20141209173116 plugins/BioVoxxel - Development/Binary_Feature_Extractor.class
  9de40424 (LOCAL_ONLY) 20150702130027 plugins/BioVoxxel - Development/Cluster_Indicator.class
  ccfe671e (LOCAL_ONLY) 20150824091753 plugins/BioVoxxel - Development/Convoluted_Background_Subtraction.class
  7981e805 (LOCAL_ONLY) 20140808110808 plugins/BioVoxxel - Development/Distribution_Analysis.class
  d19d63ea (LOCAL_ONLY) 20150526125352 plugins/BioVoxxel - Development/EDM_Binary_Operations.class
  261c3c3c (LOCAL_ONLY) 20140819124717 plugins/BioVoxxel - Development/Enhance_True_Color_Contrast.class
  20e020c7 (LOCAL_ONLY) 20150527154626 plugins/BioVoxxel - Development/Extended_Particle_Analyzer.class
  eec3cb6c (LOCAL_ONLY) 20141009104629 plugins/BioVoxxel - Development/Filter_Check.class
  433a59d9 (LOCAL_ONLY) 20140710132306 plugins/BioVoxxel - Development/Gaussian_Weighted_Median.class
  92ad8003 (LOCAL_ONLY) 20141111173727 plugins/BioVoxxel - Development/IJ_TestMacro.ijm
  c3b24177 (LOCAL_ONLY) 20140819153313 plugins/BioVoxxel - Development/Limited_Mean.class
  07f021ea (LOCAL_ONLY) 20131128112022 plugins/BioVoxxel - Development/Manual_Threshold_Quant.ijm
  67f3aea9 (LOCAL_ONLY) 20140819130029 plugins/BioVoxxel - Development/Pseudo_flat_field_correction.class
  36899961 (LOCAL_ONLY) 20150813160440 plugins/BioVoxxel - Development/Speckle_Inspector.class
  bf91b9cd (LOCAL_ONLY) 20150901170831 plugins/BioVoxxel - Development/Watershed_Irregular_Features.class
  749f45a0 (LOCAL_ONLY) 20140331095117 plugins/Colocalization/Colocalization_Colormap_.jar
  71331805 (LOCAL_ONLY) 20120815173201 plugins/Colocalization/jacop_.jar
  925f2bdd (LOCAL_ONLY) 20120602170419 plugins/Color/Alpha_Channel.class
  aefd11ed (LOCAL_ONLY) 20130315165456 plugins/Color/Color_Transformer.class
  e2d6a637 (LOCAL_ONLY) 20140209104729 plugins/Color/Color_Transformer_2.class
  dcea879b (LOCAL_ONLY) 20131208134611 plugins/Deconvolution/Diffraction_PSF_3D.class
  af22a2df (LOCAL_ONLY) 20131208134607 plugins/Deconvolution/Iterative_Deconvolve_3D.class
  8d9bdfa0 (LOCAL_ONLY) 20090703152912 plugins/DeconvolutionLab/DeconvolutionLab_.jar
  08e627bc (LOCAL_ONLY) 20150311081325 plugins/Dev/Copy_Paste_Detective (old).class
  cd53a1e0 (LOCAL_ONLY) 20151013125000 plugins/Dev/Copy_Paste_Detective.class
  ba103239 (LOCAL_ONLY) 20151013140822 plugins/Dev/Copy_Paste_Detective_NCC.class
  516e7609 (LOCAL_ONLY) 20150527190432 plugins/Dev/Copy_Paste_Mean_Detection.class
  88fc2e5a (LOCAL_ONLY) 20150223173047 plugins/Dev/Correlated_Ratio_Image.class
  b081dadd (LOCAL_ONLY) 20150311191111 plugins/Dev/Interactive_Correlation_Plot.class
  9081a754 (LOCAL_ONLY) 20150224223429 plugins/Dev/Interactive_Correlation_Plot02.class
  cbd53f9d (LOCAL_ONLY) 20150224231831 plugins/Dev/Interactive_Correlation_Plot03.class
  5b3f149d (LOCAL_ONLY) 20150316092135 plugins/Dev/Local_Entropy_Filter.class
  0d524bc2 (LOCAL_ONLY) 20140526230317 plugins/Dev/Normalized_Variance.class
  3e87daf1 (LOCAL_ONLY) 20150301131351 plugins/Dev/nMDP_Intensity_Correlation.class
  9481c712 (LOCAL_ONLY) 20150224222956 plugins/Dev/nMDP_Intensity_Correlation_Mean.class
  03999f43 (LOCAL_ONLY) 20110711135856 plugins/EDF/Demo.class
  2b08ff32 (LOCAL_ONLY) 20110711140036 plugins/EDF/EDF-demo.txt
  df409258 (LOCAL_ONLY) 20110711140720 plugins/EDF/EDF_Easy_.class
  97036c5b (LOCAL_ONLY) 20110711135856 plugins/EDF/EDF_Expert_.class
  26eaeb16 (LOCAL_ONLY) 20110711135856 plugins/EDF/EDF_Viewer3D_.class
  3f5cc128 (LOCAL_ONLY) 20110711135856 plugins/EDF/edf/AbstractEdfAlgorithm.class
  94cb75b0 (LOCAL_ONLY) 20110711135856 plugins/EDF/edf/Color2BW.class
  8e6be0b2 (LOCAL_ONLY) 20110711135856 plugins/EDF/edf/EdfComplexWavelets.class
  fb218014 (LOCAL_ONLY) 20110711135856 plugins/EDF/edf/EdfRealWavelets.class
  a7ef1a84 (LOCAL_ONLY) 20110711135856 plugins/EDF/edf/EdfSobel.class
  92c9b291 (LOCAL_ONLY) 20110711135856 plugins/EDF/edf/EdfVariance.class
  6916bcdd (LOCAL_ONLY) 20110711135856 plugins/EDF/edf/EdfWaveletMaximumModulus.class
  9fbcfcd1 (LOCAL_ONLY) 20110711135856 plugins/EDF/edf/LogSingleton.class
  267fe2fc (LOCAL_ONLY) 20110711135856 plugins/EDF/edf/MorphologicalOperators.class
  ed732583 (LOCAL_ONLY) 20110711135856 plugins/EDF/edf/PostProcessing.class
  ed51b555 (LOCAL_ONLY) 20110711135856 plugins/EDF/edf/ProcessTopology.class
  2321c8d8 (LOCAL_ONLY) 20110711135856 plugins/EDF/edf/Sobel.class
  bb9ae47e (LOCAL_ONLY) 20110711135856 plugins/EDF/edf/Tools.class
  2b8ba320 (LOCAL_ONLY) 20110711135856 plugins/EDF/edf/Variance.class
  1aedfb3f (LOCAL_ONLY) 20110711163530 plugins/EDF/edfgui/AboutDialog.class
  0c639c6c (LOCAL_ONLY) 20110711135856 plugins/EDF/edfgui/AbstractDialog$TimerListener.class
  f2c07124 (LOCAL_ONLY) 20110711135856 plugins/EDF/edfgui/AbstractDialog.class
  7ed319d6 (LOCAL_ONLY) 20110711135856 plugins/EDF/edfgui/AdvancedDialog$MyVerifier.class
  d488e269 (LOCAL_ONLY) 20110711135856 plugins/EDF/edfgui/AdvancedDialog.class
  7be3ea66 (LOCAL_ONLY) 20110711163612 plugins/EDF/edfgui/BasicDialog.class
  e88712ba (LOCAL_ONLY) 20110711140956 plugins/EDF/edfgui/ExtendedDepthOfField.class
  5ca9e395 (LOCAL_ONLY) 20110711135856 plugins/EDF/edfgui/LogPane.class
  f0f56b51 (LOCAL_ONLY) 20110711135856 plugins/EDF/edfgui/MySlider.class
  442538e1 (LOCAL_ONLY) 20110711135856 plugins/EDF/edfgui/MyTableRenderer.class
  265b3bea (LOCAL_ONLY) 20110711135856 plugins/EDF/edfgui/Parameters.class
  6ec6b0e1 (LOCAL_ONLY) 20110711135856 plugins/EDF/edfgui/SimpleTableModel.class
  a404eb8e (LOCAL_ONLY) 20110711140924 plugins/EDF/edfgui/ThreadEdf.class
  db8163fa (LOCAL_ONLY) 20110711135856 plugins/EDF/edfgui/ThreadTopoProc.class
  b77b5da8 (LOCAL_ONLY) 20110711140036 plugins/EDF/imageware/Access.class
  895118eb (LOCAL_ONLY) 20110711140036 plugins/EDF/imageware/Buffer.class
  8f404b54 (LOCAL_ONLY) 20110711140036 plugins/EDF/imageware/Builder.class
  0caa808d (LOCAL_ONLY) 20110711140036 plugins/EDF/imageware/ByteAccess.class
  f773aa9e (LOCAL_ONLY) 20110711140036 plugins/EDF/imageware/ByteBuffer.class
  d31572ce (LOCAL_ONLY) 20110711140036 plugins/EDF/imageware/BytePointwise.class
  a1c28f6c (LOCAL_ONLY) 20110711140036 plugins/EDF/imageware/ByteProcess.class
  f91ef099 (LOCAL_ONLY) 20110711140036 plugins/EDF/imageware/ByteSet.class
  10ade4a4 (LOCAL_ONLY) 20110711140036 plugins/EDF/imageware/Convolver.class
  79469ee7 (LOCAL_ONLY) 20110711140036 plugins/EDF/imageware/Display.class
  c1576be6 (LOCAL_ONLY) 20110711140036 plugins/EDF/imageware/DoubleAccess.class
  3bb456d7 (LOCAL_ONLY) 20110711140036 plugins/EDF/imageware/DoubleBuffer.class
  eed062ce (LOCAL_ONLY) 20110711140036 plugins/EDF/imageware/DoublePointwise.class
  e3f707cd (LOCAL_ONLY) 20110711140036 plugins/EDF/imageware/DoubleProcess.class
  f7d47d5d (LOCAL_ONLY) 20110711140036 plugins/EDF/imageware/DoubleSet.class
  3c98dbe0 (LOCAL_ONLY) 20110711140036 plugins/EDF/imageware/FMath.class
  e72c54a9 (LOCAL_ONLY) 20110711140036 plugins/EDF/imageware/FloatAccess.class
  752ca783 (LOCAL_ONLY) 20110711140036 plugins/EDF/imageware/FloatBuffer.class
  13d2c8ed (LOCAL_ONLY) 20110711140036 plugins/EDF/imageware/FloatPointwise.class
  f92fc306 (LOCAL_ONLY) 20110711140036 plugins/EDF/imageware/FloatProcess.class
  cbb54e2a (LOCAL_ONLY) 20110711140036 plugins/EDF/imageware/FloatSet.class
  a4b3f20a (LOCAL_ONLY) 20110711140036 plugins/EDF/imageware/ImageAccess.class
  a3cb9815 (LOCAL_ONLY) 20110711140036 plugins/EDF/imageware/ImageWare.class
  3b5db209 (LOCAL_ONLY) 20110711140036 plugins/EDF/imageware/Pointwise.class
  bab794cb (LOCAL_ONLY) 20110711140036 plugins/EDF/imageware/Process.class
  2475b92b (LOCAL_ONLY) 20110711140036 plugins/EDF/imageware/ShortAccess.class
  589b6994 (LOCAL_ONLY) 20110711140036 plugins/EDF/imageware/ShortBuffer.class
  808d9fc0 (LOCAL_ONLY) 20110711140036 plugins/EDF/imageware/ShortPointwise.class
  7a16250c (LOCAL_ONLY) 20110711140036 plugins/EDF/imageware/ShortProcess.class
  9edb2a7c (LOCAL_ONLY) 20110711140036 plugins/EDF/imageware/ShortSet.class
  2cecb7c4 (LOCAL_ONLY) 20110711135856 plugins/EDF/surfacemap/SurfaceMap3D$1.class
  d701e2d7 (LOCAL_ONLY) 20110711135856 plugins/EDF/surfacemap/SurfaceMap3D$2.class
  aa71cdde (LOCAL_ONLY) 20110711135856 plugins/EDF/surfacemap/SurfaceMap3D$Cube.class
  75f963eb (LOCAL_ONLY) 20110711135856 plugins/EDF/surfacemap/SurfaceMap3D$CustomWindow$1.class
  9f71ceeb (LOCAL_ONLY) 20110711135856 plugins/EDF/surfacemap/SurfaceMap3D$CustomWindow.class
  be688c54 (LOCAL_ONLY) 20110711135856 plugins/EDF/surfacemap/SurfaceMap3D$ImageRegion.class
  3370662a (LOCAL_ONLY) 20110711135856 plugins/EDF/surfacemap/SurfaceMap3D$Lines.class
  8ae02fcd (LOCAL_ONLY) 20110711135856 plugins/EDF/surfacemap/SurfaceMap3D$Lut.class
  c1648126 (LOCAL_ONLY) 20110711135856 plugins/EDF/surfacemap/SurfaceMap3D$Misc.class
  9919bf14 (LOCAL_ONLY) 20110711135856 plugins/EDF/surfacemap/SurfaceMap3D$Picture.class
  16ac3c3a (LOCAL_ONLY) 20110711135856 plugins/EDF/surfacemap/SurfaceMap3D$PlotVal.class
  d717fe7c (LOCAL_ONLY) 20110711135856 plugins/EDF/surfacemap/SurfaceMap3D$TextField.class
  f954757f (LOCAL_ONLY) 20110711135856 plugins/EDF/surfacemap/SurfaceMap3D$Transform.class
  fb38ada4 (LOCAL_ONLY) 20110711135856 plugins/EDF/surfacemap/SurfaceMap3D.class
  6d6af260 (LOCAL_ONLY) 20110711140036 plugins/EDF/wavelets/ComplexWaveFilter.class
  62046e79 (LOCAL_ONLY) 20110711140036 plugins/EDF/wavelets/ComplexWavelet.class
  b3f1dbba (LOCAL_ONLY) 20110711140036 plugins/EDF/wavelets/ImageAccess.class
  68788aa5 (LOCAL_ONLY) 20110711140036 plugins/EDF/wavelets/WaveSpline.class
  f469ca9f (LOCAL_ONLY) 20110711140036 plugins/EDF/wavelets/WaveSplineFilter.class
  f02e6e81 (LOCAL_ONLY) 20130624145025 plugins/Filters/Edge_Enhancement.ijm
  9bdfcd0a (LOCAL_ONLY) 20130813164727 plugins/Filters/Hybrid_2D_Median_Filter.class
  61d742a8 (LOCAL_ONLY) 20140224094701 plugins/Filters/Lipschitz_.class
  ee9b1292 (LOCAL_ONLY) 20121119175722 plugins/Filters/Mexican_Hat_Filter.class
  789a3125 (LOCAL_ONLY) 20150115112144 plugins/Filters/Nonuniform_Background_Removal.class
  adbd06cc (LOCAL_ONLY) 20130624144145 plugins/Filters/Thresholded_Blur.class
  38b10ec9 (LOCAL_ONLY) 20140911101435 plugins/Filters/image_edge.jar
  e9cb6eb7 (LOCAL_ONLY) 20151009122529 plugins/Image_CorrelationJ_1o.class
  7c1f7a42 20150923103620 plugins/MIST_.jar
  a1687e80 (LOCAL_ONLY) 20150811151832 plugins/SSIDC_.jar
  3934e601 (LOCAL_ONLY) 20151009124049 plugins/Template Matching/Template_Matching.jar
  0a239ac5 (LOCAL_ONLY) 20151009124217 plugins/Template Matching/javacpp.jar
  98bf21b3 (LOCAL_ONLY) 20151009124212 plugins/Template Matching/javacv.jar
  defb7269 (LOCAL_ONLY) 20151009124240 plugins/Template Matching/opencv-windows-x86_64.jar
  1cf67de6 (LOCAL_ONLY) 20151009124221 plugins/Template Matching/opencv.jar
  d7cec1ac (LOCAL_ONLY) 20150113133234 plugins/Versatile_Wand.class
  23f213f1 (LOCAL_ONLY) 20150521124808 plugins/ijblob-1.3.jar

Comment 1 Jan Brocher 2015-10-15 07:45:32 CDT

newest Bio-formats was installed on the IJ 2.0.0-rc39/1.50b version and the bug persists.
2 weeks ago, it actually worked perfectly in the last life-line version of Fiji

Comment 2 Jan Brocher 2015-10-15 07:47:22 CDT

Here is the exception thrown:

java.lang.reflect.InvocationTargetException
	at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39)
	at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
	at java.lang.reflect.Method.invoke(Method.java:597)
	at loci.plugins.macro.MacroFunctions.handleExtension(MacroFunctions.java:83)
	at ij.macro.ExtensionDescriptor.dispatch(ExtensionDescriptor.java:288)
	at ij.macro.Functions.doExt(Functions.java:4261)
	at ij.macro.Functions.getStringFunction(Functions.java:267)
	at ij.macro.Interpreter.getStringTerm(Interpreter.java:1283)
	at ij.macro.Interpreter.getString(Interpreter.java:1262)
	at ij.macro.Interpreter.doStatement(Interpreter.java:277)
	at ij.macro.Interpreter.doStatements(Interpreter.java:214)
	at ij.macro.Interpreter.run(Interpreter.java:111)
	at ij.macro.Interpreter.run(Interpreter.java:81)
	at ij.macro.Interpreter.run(Interpreter.java:92)
	at ij.plugin.Macro_Runner.runMacro(Macro_Runner.java:153)
	at ij.IJ.runMacro(IJ.java:119)
	at ij.IJ.runMacro(IJ.java:108)
	at net.imagej.legacy.IJ1Helper.runMacro(IJ1Helper.java:787)
	at net.imagej.legacy.plugin.IJ1MacroEngine.eval(IJ1MacroEngine.java:116)
	at net.imagej.legacy.plugin.IJ1MacroEngine.eval(IJ1MacroEngine.java:160)
	at org.scijava.script.ScriptModule.run(ScriptModule.java:175)
	at org.scijava.module.ModuleRunner.run(ModuleRunner.java:167)
	at org.scijava.module.ModuleRunner.call(ModuleRunner.java:126)
	at org.scijava.module.ModuleRunner.call(ModuleRunner.java:65)
	at org.scijava.thread.DefaultThreadService$2.call(DefaultThreadService.java:164)
	at java.util.concurrent.FutureTask$Sync.innerRun(FutureTask.java:303)
	at java.util.concurrent.FutureTask.run(FutureTask.java:138)
	at java.util.concurrent.ThreadPoolExecutor$Worker.runTask(ThreadPoolExecutor.java:886)
	at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:908)
	at java.lang.Thread.run(Thread.java:662)
Caused by: loci.formats.UnknownFormatException: Unknown file format: D:\BioVoxxel\Programme für User und Liste\Fisslthaler\images\Loop_Opening_Individual_Img-Series_from_Exp
	at loci.formats.ImageReader.getReader(ImageReader.java:194)
	at loci.formats.ImageReader.setId(ImageReader.java:750)
	at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:569)
	at loci.formats.ChannelSeparator.setId(ChannelSeparator.java:270)
	at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:569)
	at loci.plugins.macro.LociFunctions.setId(LociFunctions.java:402)
	... 31 more

Comment 3 Jan Brocher 2015-10-15 07:48:13 CDT

Here is the exception thrown:

java.lang.reflect.InvocationTargetException
	at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39)
	at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
	at java.lang.reflect.Method.invoke(Method.java:597)
	at loci.plugins.macro.MacroFunctions.handleExtension(MacroFunctions.java:83)
	at ij.macro.ExtensionDescriptor.dispatch(ExtensionDescriptor.java:288)
	at ij.macro.Functions.doExt(Functions.java:4261)
	at ij.macro.Functions.getStringFunction(Functions.java:267)
	at ij.macro.Interpreter.getStringTerm(Interpreter.java:1283)
	at ij.macro.Interpreter.getString(Interpreter.java:1262)
	at ij.macro.Interpreter.doStatement(Interpreter.java:277)
	at ij.macro.Interpreter.doStatements(Interpreter.java:214)
	at ij.macro.Interpreter.run(Interpreter.java:111)
	at ij.macro.Interpreter.run(Interpreter.java:81)
	at ij.macro.Interpreter.run(Interpreter.java:92)
	at ij.plugin.Macro_Runner.runMacro(Macro_Runner.java:153)
	at ij.IJ.runMacro(IJ.java:119)
	at ij.IJ.runMacro(IJ.java:108)
	at net.imagej.legacy.IJ1Helper.runMacro(IJ1Helper.java:787)
	at net.imagej.legacy.plugin.IJ1MacroEngine.eval(IJ1MacroEngine.java:116)
	at net.imagej.legacy.plugin.IJ1MacroEngine.eval(IJ1MacroEngine.java:160)
	at org.scijava.script.ScriptModule.run(ScriptModule.java:175)
	at org.scijava.module.ModuleRunner.run(ModuleRunner.java:167)
	at org.scijava.module.ModuleRunner.call(ModuleRunner.java:126)
	at org.scijava.module.ModuleRunner.call(ModuleRunner.java:65)
	at org.scijava.thread.DefaultThreadService$2.call(DefaultThreadService.java:164)
	at java.util.concurrent.FutureTask$Sync.innerRun(FutureTask.java:303)
	at java.util.concurrent.FutureTask.run(FutureTask.java:138)
	at java.util.concurrent.ThreadPoolExecutor$Worker.runTask(ThreadPoolExecutor.java:886)
	at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:908)
	at java.lang.Thread.run(Thread.java:662)
Caused by: loci.formats.UnknownFormatException: Unknown file format: D:\BioVoxxel\Programme für User und Liste\Fisslthaler\images\Loop_Opening_Individual_Img-Series_from_Exp
	at loci.formats.ImageReader.getReader(ImageReader.java:194)
	at loci.formats.ImageReader.setId(ImageReader.java:750)
	at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:569)
	at loci.formats.ChannelSeparator.setId(ChannelSeparator.java:270)
	at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:569)
	at loci.plugins.macro.LociFunctions.setId(LociFunctions.java:402)
	... 31 more

Comment 4 Jan Brocher 2015-10-15 07:53:09 CDT

resolved due to mistake in file