[ImageJ-bugs] [Bug 1167] New: grid stitching seems broken

bugzilla at fiji.sc bugzilla at fiji.sc
Wed Sep 30 16:58:37 CDT 2015 

http://fiji.sc/bugzilla/show_bug.cgi?id=1167

            Bug ID: 1167
           Summary: grid stitching seems broken
           Product: Fiji
           Version: unspecified
          Hardware: PC
                OS: Windows
            Status: NEW
          Severity: normal
          Priority: P4
         Component: Plugins
          Assignee: imagej-bugs at imagej.net
          Reporter: vbindoka at bsd.uchicago.edu
                CC: vbindoka at bsd.uchicago.edu

tried and true stitiching macro quit working today.
err console reports:
There was a problem with the class net.imglib2.view.Views which can be found
here:
/E:/SEP201~1/jars/imglib2-2.0.0-beta-26.jar
java.lang.NoSuchMethodError:
net.imglib2.view.Views.extendMirrorSingle(Lnet/imglib2/RandomAccessibleInterval;)Lnet/imglib2/view/ExtendedRandomAccessibleInterval;
    at
mpicbg.stitching.fusion.ImageInterpolation.<init>(ImageInterpolation.java:29)
    at mpicbg.stitching.fusion.Fusion.fuse(Fusion.java:154)
    at plugin.Stitching_Grid.run(Stitching_Grid.java:601)
    at ij.IJ.runUserPlugIn(IJ.java:212)
    at ij.IJ.runPlugIn(IJ.java:176)
    at ij.Executer.runCommand(Executer.java:132)
    at ij.Executer.run(Executer.java:65)
    at java.lang.Thread.run(Thread.java:662)

java.lang.NoSuchMethodException: Could not find method
net.imglib2.view.Views.extendMirrorSingle(Lnet/imglib2/RandomAccessibleInterval;)Lnet/imglib2/view/ExtendedRandomAccessibleInterval;
There was a problem with the class net.imglib2.view.Views which can be found
here:
/E:/SEP201~1/jars/imglib2-2.0.0-beta-26.jar
java.lang.NoSuchMethodError:
net.imglib2.view.Views.extendMirrorSingle(Lnet/imglib2/RandomAccessibleInterval;)Lnet/imglib2/view/ExtendedRandomAccessibleInterval;
    at
mpicbg.stitching.fusion.ImageInterpolation.<init>(ImageInterpolation.java:29)
    at mpicbg.stitching.fusion.Fusion.fuse(Fusion.java:154)
    at plugin.Stitching_Grid.run(Stitching_Grid.java:601)
    at ij.IJ.runUserPlugIn(IJ.java:212)
    at ij.IJ.runPlugIn(IJ.java:176)
    at ij.Executer.runCommand(Executer.java:132)
    at ij.Executer.run(Executer.java:65)
    at java.lang.Thread.run(Thread.java:662)

    at
mpicbg.stitching.fusion.ImageInterpolation.<init>(ImageInterpolation.java:29)
    at mpicbg.stitching.fusion.Fusion.fuse(Fusion.java:154)
    at plugin.Stitching_Grid.run(Stitching_Grid.java:601)
    at ij.IJ.runUserPlugIn(IJ.java:212)
    at ij.IJ.runPlugIn(IJ.java:176)
    at ij.Executer.runCommand(Executer.java:132)
    at ij.Executer.run(Executer.java:65)
    at java.lang.Thread.run(Thread.java:662)

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: REMIND_LATER

Information relevant to JAVA_HOME related problems:

  JAVA_HOME is set to: E:\SEP201~1/java/win64/jdk1.6.0_24//jre
  imagej.dir => E:\SEP201~1

Information about the version of each plugin:

Activated update sites:
ImageJ: http://update.imagej.net/ (last check:20150915084157)
Fiji: http://update.fiji.sc/ (last check:20150928080247)
3D ImageJ Suite: http://sites.imagej.net/Tboudier/ (last check:20150914000333)
Bio-Formats: http://sites.imagej.net/Bio-Formats/ (last check:20150929202643)
ClearVolume: http://sites.imagej.net/ClearVolume/ (last check:20150703051607)
FFMPEG: http://fiji.sc/~schindelin/ffmpeg-plugins/ (last check:20130606102449)
GDSC-SMLM: http://sites.imagej.net/GDSC-SMLM/ (last check:20150327072750)
HDF5: http://sites.imagej.net/Ronneber/ (last check:20150214064119)
LLTT: http://sites.imagej.net/Alex-krull/ (last check:20141018111721)
Morphology: http://sites.imagej.net/Landini/ (last check:20140723095558)
MS-ECS-2D: http://sites.imagej.net/MS-ECS-2D/ (last check:20150821142350)
Stowers: http://research.stowers.org/imagejplugins/updates/ (last
check:20150929093505)

Files not up-to-date:
  6d337b7a (LOCAL_ONLY) 20140730142734 plugins/Accurate_Gaussian_Blur.class
  6e9d50db (LOCAL_ONLY) 20140320051924 plugins/Adjustable_Watershed.class
  306ad943 (LOCAL_ONLY) 20150721115948 plugins/Align3_TP.jar
  12ec0761 (LOCAL_ONLY) 20120224100622 plugins/Align_RGB_planes.class
  f98ce4f3 (LOCAL_ONLY) 20150721120238 plugins/Auto_Align_2.jar
  b0398adb (LOCAL_ONLY) 20141028073350
plugins/DeconvolutionLab/DeconvolutionLab_.jar
  11326750 (LOCAL_ONLY) 20050408103628 plugins/FFT1D.class
  18f23277 (LOCAL_ONLY) 20050408103628 plugins/FourierSpace.class
  44693e65 (LOCAL_ONLY) 20150325121214 plugins/Frac_Lac.jar
  348da731 (LOCAL_ONLY) 20141126044659 plugins/GHT_.jar
  15a0aac2 (LOCAL_ONLY) 20050408150536 plugins/GibsonPSF.class
  52861b7c (LOCAL_ONLY) 20050408150244 plugins/GibsonPSFF.class
  f481dc68 (LOCAL_ONLY) 20120817074900 plugins/Hybrid_2D_Filters.class
  6b2de3e5 (LOCAL_ONLY) 20120817084143 plugins/Hybrid_3D_Filters.class
  e9cb6eb7 (LOCAL_ONLY) 20150115083713 plugins/Image_CorrelationJ_1o.class
  077159f3 (LOCAL_ONLY) 20150716125422 plugins/Image_Stabilizer.class
  55624188 (LOCAL_ONLY) 20150716125430
plugins/Image_Stabilizer_Log_Applier.class
  71ae5c42 (LOCAL_ONLY) 20140509130342 plugins/KalmanOpenStackFilter_.class
  d0d470a1 (LOCAL_ONLY) 20150910042624 plugins/MIST_.jar
  53c5c1ad (LOCAL_ONLY) 20141103073745 plugins/NL_Means_.jar
  21927175 (LOCAL_ONLY) 20140808090713 plugins/PIV_.jar
  b3b13b1f (LOCAL_ONLY) 20050408150244 plugins/PSFCredits$1.class
  cb99705d (LOCAL_ONLY) 20050408150244 plugins/PSFCredits.class
  de90b917 (LOCAL_ONLY) 20050408150536 plugins/PSFCreditsG$1.class
  e33950eb (LOCAL_ONLY) 20050408150536 plugins/PSFCreditsG.class
  9f2412ff (LOCAL_ONLY) 20141028082626 plugins/PSF_Generator.jar
  5a3abd78 (LOCAL_ONLY) 20050408150536 plugins/PSF_Gibson_.class
  65b190f7 (LOCAL_ONLY) 20121002063426 plugins/PSF_Simple_.class
  12289f6e (LOCAL_ONLY) 20110916093010 plugins/PureDenoise_.jar
  2d4a0cba (LOCAL_ONLY) 20150918081935 plugins/Thunder_STORM.jar
  69b16199 (LOCAL_ONLY) 20050408103628 plugins/WaveDaub4.class
  f0990b22 (LOCAL_ONLY) 20050408103628 plugins/WaveDaub4Filter.class
  27901023 (LOCAL_ONLY) 20050408152652 plugins/Wavelet_Deconvolution_.class
  71331805 (LOCAL_ONLY) 20140314082430 plugins/jacop_.jar
  9bbfb280 (LOCAL_ONLY) 20140225135257 plugins/octane2_.jar

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