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Bug 917 - current build vanishes image after 'run(Add Slice)'
current build vanishes image after 'run(Add Slice)'
Status: NEW
Product: Fiji
Classification: Unclassified
Component: Plugins
unspecified
PC Windows
: P4 normal
Assigned To: ImageJ Bugs Mailing List
: 918
Depends on:
Blocks:
 
Reported: 2014-08-27 09:45 CDT by vbindoka
Modified: 2014-08-27 12:52 CDT
2 users (show)

See Also:

Description vbindoka 2014-08-27 09:45:50 CDT
I set a counter to add a slice every XX frames of analysis. [long macro code]
When FIJI hits the point to add the slice, the image vanishes, though it's listed in the MENUBAR windows listing.  It can't be made visible. Trying to kill FIJI will ask if the image should be saved, so it seems to exist somewhere!
I suspect this is reversion of the phantom windows bug, or a new twist.

MY CODE WORKS IN ImageJ-1 !
I can send the macro,if desired, requires stack as input.

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:\FEB201~1/java/win64/jdk1.6.0_24//jre
  imagej.dir => E:\FEB201~1

Information about the version of each plugin:

Activated update sites:
ImageJ: http://update.imagej.net/ (last check:20140825134315)
Fiji: http://fiji.sc/update/ (last check:20140827055124)
Archipelago: http://sites.imagej.net/Lindsey/ (last check:20140804164638)
Bio-Formats: http://sites.imagej.net/Bio-Formats/ (last check:20140825202638)
BioVoxxel: http://sites.imagej.net/BioVoxxel/ (last check:20140819150502)
GDSC-SMLM: http://sites.imagej.net/GDSC-SMLM/ (last check:20140819094413)
OpenSPIM: http://openspim.org/update/ (last check:20140630085101)
Stowers: http://research.stowers.org/imagejplugins/updates/ (last check:20140805104656)

Files not up-to-date:
  6d337b7a (LOCAL_ONLY) 20140730142734 plugins/Accurate_Gaussian_Blur.class
  6e9d50db (LOCAL_ONLY) 20140320051924 plugins/Adjustable_Watershed.class
  12ec0761 (LOCAL_ONLY) 20120224100622 plugins/Align_RGB_planes.class
  f88d051b (LOCAL_ONLY) 20140730154443 plugins/Align_Slice.class
  55de57f2 (LOCAL_ONLY) 20050408121420 plugins/DecCredits$1.class
  66a64476 (LOCAL_ONLY) 20050408121420 plugins/DecCredits.class
  fd4ce3cd (LOCAL_ONLY) 20050408103628 plugins/DeconvolutionFFT.class
  8d9bdfa0 (LOCAL_ONLY) 20090703162900 plugins/DeconvolutionLab/DeconvolutionLab_.jar
  8866a3cd (LOCAL_ONLY) 20050408103628 plugins/DeconvolutionSolution.class
  ce989b93 (LOCAL_ONLY) 20050408103628 plugins/DeconvolutionWavelets.class
  13072662 (LOCAL_ONLY) 20050408121420 plugins/Deconvolution_.class
  11326750 (LOCAL_ONLY) 20050408103628 plugins/FFT1D.class
  18f23277 (LOCAL_ONLY) 20050408103628 plugins/FourierSpace.class
  71b76f0a (LOCAL_ONLY) 20140702072831 plugins/Frac_Lac.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) 20140811043831 plugins/Image_CorrelationJ_1o.class
  d27e0bc5 (LOCAL_ONLY) 20140501133448 plugins/Intensity_Correlation_Analysis2.class
  71ae5c42 (LOCAL_ONLY) 20140509130342 plugins/KalmanOpenStackFilter_.class
  44f1acfa (LOCAL_ONLY) 20121128135145 plugins/Mexican_Hat_Filter.class
  d84cc2bb (LOCAL_ONLY) 20121012091604 plugins/Morphology/Add_Borders.class
  5cccefae (LOCAL_ONLY) 20121012091606 plugins/Morphology/AnnularClosing.txt
  763870ef (LOCAL_ONLY) 20121012091604 plugins/Morphology/AnnularDilation.txt
  5d777e5e (LOCAL_ONLY) 20121012091604 plugins/Morphology/BinaryConditionalDilate_.class
  6cfae168 (LOCAL_ONLY) 20121012091606 plugins/Morphology/BinaryConditionalErode_.class
  877be8e6 (LOCAL_ONLY) 20121012091606 plugins/Morphology/BinaryConnectivity_.class
  ebe4d9b0 (LOCAL_ONLY) 20121012091606 plugins/Morphology/BinaryDilateNoMerge4_.class
  65b35fcd (LOCAL_ONLY) 20121012091606 plugins/Morphology/BinaryDilateNoMerge8_.class
  da5dc033 (LOCAL_ONLY) 20121012091604 plugins/Morphology/BinaryDilateTest.txt
  fe9208a2 (LOCAL_ONLY) 20121012091605 plugins/Morphology/BinaryDilate_.class
  9f2b4ef9 (LOCAL_ONLY) 20121012091604 plugins/Morphology/BinaryErodeTest.txt
  b38e2aa0 (LOCAL_ONLY) 20121012091605 plugins/Morphology/BinaryErode_.class
  3f39caaf (LOCAL_ONLY) 20121012091605 plugins/Morphology/BinaryFilterReconstruct.txt
  76eb6799 (LOCAL_ONLY) 20121012091605 plugins/Morphology/BinaryFilterReconstruct_.class
  6a2c8b7a (LOCAL_ONLY) 20121012091606 plugins/Morphology/BinaryGeodesicDilateNoMerge8_.class
  14c67860 (LOCAL_ONLY) 20121012091605 plugins/Morphology/BinaryHitOrMiss_.class
  33b507c2 (LOCAL_ONLY) 20121012091604 plugins/Morphology/BinaryKillBorders_.class
  4204c1c6 (LOCAL_ONLY) 20121012091606 plugins/Morphology/BinaryLabel8_.class
  d3c84f8c (LOCAL_ONLY) 20121012091606 plugins/Morphology/BinaryLabelMacro.txt
  59e1afe9 (LOCAL_ONLY) 20121012091606 plugins/Morphology/BinaryLabel_.class
  36e4a042 (LOCAL_ONLY) 20121012091605 plugins/Morphology/BinaryPrune.txt
  c8c66f92 (LOCAL_ONLY) 20121012091605 plugins/Morphology/BinaryReconstruct_.class
  3ff298c7 (LOCAL_ONLY) 20121012091606 plugins/Morphology/BinaryThick2_.class
  b73f68f4 (LOCAL_ONLY) 20121012091605 plugins/Morphology/BinaryThick_.class
  2c4c813e (LOCAL_ONLY) 20121012091606 plugins/Morphology/BinaryThin2_.class
  d8a5d664 (LOCAL_ONLY) 20121012091604 plugins/Morphology/BinaryThin_.class
  3e83cc61 (LOCAL_ONLY) 20121012091605 plugins/Morphology/Boundary4.txt
  9d64440e (LOCAL_ONLY) 20121012091604 plugins/Morphology/Boundary8_.txt
  e9fc745d (LOCAL_ONLY) 20121012091606 plugins/Morphology/Catalogue_Particles.txt
  4d0095a2 (LOCAL_ONLY) 20121012091605 plugins/Morphology/Classify_Particles.class
  f53a898e (LOCAL_ONLY) 20121012091604 plugins/Morphology/CloseByReconstructionTopHat.txt
  2c7f38f5 (LOCAL_ONLY) 20121012091606 plugins/Morphology/CloseByReconstruction_.txt
  1c33105a (LOCAL_ONLY) 20121012091605 plugins/Morphology/ConvexHull1.txt
  7cb69fdf (LOCAL_ONLY) 20121012091605 plugins/Morphology/ConvexHull2.txt
  b19cb415 (LOCAL_ONLY) 20121012091604 plugins/Morphology/ConvexHull3.txt
  bd22187f (LOCAL_ONLY) 20121012091605 plugins/Morphology/Corners.txt
  55c709bf (LOCAL_ONLY) 20121012091604 plugins/Morphology/Correlate_Results.class
  d463ee86 (LOCAL_ONLY) 20121012091605 plugins/Morphology/Delete_ZeroArea.txt
  8df2eb76 (LOCAL_ONLY) 20121012091604 plugins/Morphology/Diagonal8to4.txt
  61193e21 (LOCAL_ONLY) 20121012091605 plugins/Morphology/Domes_.class
  e428a0f5 (LOCAL_ONLY) 20121012091604 plugins/Morphology/Domes_stack.txt
  1be944ae (LOCAL_ONLY) 20121012091606 plugins/Morphology/DoubleWaterfall.txt
  925d3d8c (LOCAL_ONLY) 20121012091605 plugins/Morphology/DrawBoundingBox.txt
  63c4cd27 (LOCAL_ONLY) 20121012091605 plugins/Morphology/DrawBoundingCircle.txt
  b97f945a (LOCAL_ONLY) 20121012091606 plugins/Morphology/DrawConvexHulls.txt
  2adcfe94 (LOCAL_ONLY) 20121012091605 plugins/Morphology/DrawFeret&Breadth.txt
  b60f4365 (LOCAL_ONLY) 20121012091605 plugins/Morphology/DrawMinR&MaxR.txt
  288ace7a (LOCAL_ONLY) 20121012091605 plugins/Morphology/EDM_16bits.txt
  71d10273 (LOCAL_ONLY) 20121012091605 plugins/Morphology/Euler.txt
  63757672 (LOCAL_ONLY) 20121012091604 plugins/Morphology/Extended_Maxima.txt
  285e4c16 (LOCAL_ONLY) 20121012091606 plugins/Morphology/Extended_Minima.txt
  2b80b381 (LOCAL_ONLY) 20121012091605 plugins/Morphology/FillHolesReconstruct.txt
  205b6052 (LOCAL_ONLY) 20121012091604 plugins/Morphology/Fill_Border_Holes.txt
  54d7ef21 (LOCAL_ONLY) 20121012091604 plugins/Morphology/Fill_Greyscale_Holes.txt
  75041650 (LOCAL_ONLY) 20121012091604 plugins/Morphology/GreyBlackTopHatByReconstruction_.txt
  6f716dcc (LOCAL_ONLY) 20121012091605 plugins/Morphology/GreyWhiteTopHatByReconstruction_.txt
  579b5383 (LOCAL_ONLY) 20121012091605 plugins/Morphology/GreyscaleCentreFilter.txt
  ee023f37 (LOCAL_ONLY) 20121012114130 plugins/Morphology/GreyscaleDilate_.class
  965f297a (LOCAL_ONLY) 20121012091605 plugins/Morphology/GreyscaleErode_.class
  0a50379d (LOCAL_ONLY) 20121012091605 plugins/Morphology/GreyscaleKillBorders.txt
  d3047959 (LOCAL_ONLY) 20121012091604 plugins/Morphology/GreyscaleProperAutomedian.txt
  b4d94111 (LOCAL_ONLY) 20121012091605 plugins/Morphology/GreyscaleProperClose.txt
  44d81a95 (LOCAL_ONLY) 20121012091604 plugins/Morphology/GreyscaleProperOpen.txt
  9aadbae0 (LOCAL_ONLY) 20121012091604 plugins/Morphology/GreyscaleReconstruct_.class
  4d7e6035 (LOCAL_ONLY) 20121012091604 plugins/Morphology/GreyscaleTopHat.txt
  cb2dc22a (LOCAL_ONLY) 20121012091606 plugins/Morphology/GreyscaleWell.txt
  282495a6 (LOCAL_ONLY) 20121012091604 plugins/Morphology/H-break.txt
  a73d2279 (LOCAL_ONLY) 20121012091605 plugins/Morphology/HMaxima_Transform.txt
  f1c1b630 (LOCAL_ONLY) 20121012091606 plugins/Morphology/HMinima_Transform.txt
  af3183b2 (LOCAL_ONLY) 20121012091606 plugins/Morphology/Hole_Counter.txt
  930ee9e1 (LOCAL_ONLY) 20121012091605 plugins/Morphology/HomotopicMarking.txt
  3429c4f3 (LOCAL_ONLY) 20121012091604 plugins/Morphology/Hysteresis.txt
  2511df4c (LOCAL_ONLY) 20121012091606 plugins/Morphology/Impose_Minimum.txt
  6be72748 (LOCAL_ONLY) 20121012091604 plugins/Morphology/Influence_Zones.txt
  5859277c (LOCAL_ONLY) 20121012091604 plugins/Morphology/KeepLargestParticle.txt
  559e475f (LOCAL_ONLY) 20121012091604 plugins/Morphology/KeepLargestParticlePixels_.txt
  4605ad0a (LOCAL_ONLY) 20121012091605 plugins/Morphology/KeepParticlesInRange.txt
  b46b2695 (LOCAL_ONLY) 20121012091606 plugins/Morphology/Lines8_.class
  43259a0b (LOCAL_ONLY) 20121012091605 plugins/Morphology/LocalMaxima.txt
  c0207001 (LOCAL_ONLY) 20121012091605 plugins/Morphology/LocalMinMax.txt
  b2139bd8 (LOCAL_ONLY) 20121012091605 plugins/Morphology/LocalMinima.txt
  05f0502d (LOCAL_ONLY) 20121012091605 plugins/Morphology/MCentroids.txt
  b3ea5e05 (LOCAL_ONLY) 20121012091605 plugins/Morphology/MinimaDynamic.txt
  57e4bbaa (LOCAL_ONLY) 20121012091605 plugins/Morphology/Morphological2Derivative1.txt
  35b51e7e (LOCAL_ONLY) 20121012091604 plugins/Morphology/Morphological2Derivative2.txt
  ef809632 (LOCAL_ONLY) 20121012091605 plugins/Morphology/Morphological2Derivative3.txt
  73902be6 (LOCAL_ONLY) 20121012091605 plugins/Morphology/MorphologicalContrastTopHat.txt
  86d43a13 (LOCAL_ONLY) 20121012091605 plugins/Morphology/MorphologicalExternalGradient.txt
  66d657f2 (LOCAL_ONLY) 20121012091605 plugins/Morphology/MorphologicalGradient3.txt
  2cd67873 (LOCAL_ONLY) 20121012091604 plugins/Morphology/MorphologicalGradientBeucher.txt
  b141cc35 (LOCAL_ONLY) 20121012091605 plugins/Morphology/MorphologicalInternalGradient.txt
  babf8d91 (LOCAL_ONLY) 20121012091605 plugins/Morphology/MorphologicalSharpGradient.txt
  7e05ec43 (LOCAL_ONLY) 20121012091605 plugins/Morphology/MorphologicalSmoothing1.txt
  df30c851 (LOCAL_ONLY) 20121012091604 plugins/Morphology/MorphologicalSmoothing2.txt
  b4232d82 (LOCAL_ONLY) 20121012091604 plugins/Morphology/Morphological_Clustering.txt
  c4024220 (LOCAL_ONLY) 20121012091604 plugins/Morphology/Morphological_PCA.txt
  44b58573 (LOCAL_ONLY) 20121012091604 plugins/Morphology/Morphological_SelfDualCentre.txt
  d20caeeb (LOCAL_ONLY) 20121012091604 plugins/Morphology/Morphological_contrast.txt
  c40dcb5d (LOCAL_ONLY) 20121012091606 plugins/Morphology/MultiscaleGradient.txt
  7fa60ae6 (LOCAL_ONLY) 20121012091606 plugins/Morphology/NumberParticles8_.txt
  cd6cf4de (LOCAL_ONLY) 20121012091606 plugins/Morphology/OpenByReconstructionTopHat.txt
  5f844fa9 (LOCAL_ONLY) 20121012091606 plugins/Morphology/OpenByReconstruction_.txt
  8fdf1b15 (LOCAL_ONLY) 20121012091605 plugins/Morphology/Parameter_Matrix.txt
  65c22a1e (LOCAL_ONLY) 20121012091605 plugins/Morphology/ParticleHoleArea.txt
  9a713d79 (LOCAL_ONLY) 20121012091605 plugins/Morphology/ParticleHoleNumber.txt
  9c0a7763 (LOCAL_ONLY) 20121012091606 plugins/Morphology/Particle_Data_Map.txt
  85b99ff0 (LOCAL_ONLY) 20121012091605 plugins/Morphology/Particles4_.class
  583118b2 (LOCAL_ONLY) 20121012091604 plugins/Morphology/Particles8_.class
  ac25812c (LOCAL_ONLY) 20121012091604 plugins/Morphology/Plot_BivariateGraphs.txt
  e8ea53cb (LOCAL_ONLY) 20121012091605 plugins/Morphology/Plot_Histograms.txt
  ce077644 (LOCAL_ONLY) 20121012091605 plugins/Morphology/Prune1.txt
  c4126534 (LOCAL_ONLY) 20121012091604 plugins/Morphology/PruneAll.txt
  916ac5a4 (LOCAL_ONLY) 20121012091604 plugins/Morphology/RegionalMinMax.txt
  3dcf6fa2 (LOCAL_ONLY) 20121012091604 plugins/Morphology/Regional_Maxima.txt
  bc61499e (LOCAL_ONLY) 20121012091605 plugins/Morphology/Regional_Minima.txt
  358d5270 (LOCAL_ONLY) 20121012091606 plugins/Morphology/SelfComplementaryTopHat.txt
  36e7e0b4 (LOCAL_ONLY) 20121012091604 plugins/Morphology/SelfDualReconstruction_.txt
  64886ac9 (LOCAL_ONLY) 20121012091605 plugins/Morphology/Skeleton1.txt
  64fa451e (LOCAL_ONLY) 20121012091604 plugins/Morphology/Skeleton2.txt
  809a6770 (LOCAL_ONLY) 20121012091606 plugins/Morphology/Skeleton3.txt
  16447730 (LOCAL_ONLY) 20121012091605 plugins/Morphology/Skeleton4.txt
  b2242712 (LOCAL_ONLY) 20121012091606 plugins/Morphology/SkeletonFiltering.txt
  5d0400a0 (LOCAL_ONLY) 20121012091606 plugins/Morphology/Summarize_Results.txt
  ab0b29c3 (LOCAL_ONLY) 20121012091605 plugins/Morphology/Thin_Results_Table.txt
  090f96c1 (LOCAL_ONLY) 20121012091605 plugins/Morphology/UnbiasedCounting.txt
  fecf6a46 (LOCAL_ONLY) 20121012091604 plugins/Morphology/UnbiasedParticleArea.txt
  19a9433c (LOCAL_ONLY) 20121012091605 plugins/Morphology/Viscous_Geodesic_Reconstruction.txt
  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
  5a3abd78 (LOCAL_ONLY) 20050408150536 plugins/PSF_Gibson_.class
  65b190f7 (LOCAL_ONLY) 20121002063426 plugins/PSF_Simple_.class
  0c89ccf5 (LOCAL_ONLY) 20140507100709 plugins/PoissonNMF_.jar
  12289f6e (LOCAL_ONLY) 20110916093010 plugins/PureDenoise_.jar
  0eb97953 (LOCAL_ONLY) 20120921142744 plugins/RGB_Profiler.class
  a75d3b5e (LOCAL_ONLY) 20140416070711 plugins/Shape_Descriptor1u.class
  69b16199 (LOCAL_ONLY) 20050408103628 plugins/WaveDaub4.class
  f0990b22 (LOCAL_ONLY) 20050408103628 plugins/WaveDaub4Filter.class
  27901023 (LOCAL_ONLY) 20050408152652 plugins/Wavelet_Deconvolution_.class
  b2afde18 (LOCAL_ONLY) 20140325152012 plugins/cell_counter.jar
  71331805 (LOCAL_ONLY) 20140314082430 plugins/jacop_.jar
  16e7eed3 (LOCAL_ONLY) 20140228132323 plugins/jars/Compiler.jar
  9bbfb280 (LOCAL_ONLY) 20140225135257 plugins/octane2_.jar
  217563b6 (LOCAL_ONLY) 20140808091558 plugins/win_64bit/LICENSE_javacv.txt
  8f96d1bf (LOCAL_ONLY) 20140808091559 plugins/win_64bit/ffmpeg-20130915-git-7ac6c63-windows-x86_64.jar
  ad41ea93 (LOCAL_ONLY) 20140808091559 plugins/win_64bit/javacpp.jar
  d460641f (LOCAL_ONLY) 20140808091559 plugins/win_64bit/javacv-windows-x86_64.jar
  922d91fd (LOCAL_ONLY) 20140808091601 plugins/win_64bit/javacv.jar
  cdbfe3b8 (LOCAL_ONLY) 20140808091601 plugins/win_64bit/license.txt
  db4cd450 (LOCAL_ONLY) 20140808091602 plugins/win_64bit/opencv-2.4.6.0-windows-x86_64.jar
Comment 1 Mark Hiner 2014-08-27 12:51:51 CDT
*** Bug 918 has been marked as a duplicate of this bug. ***
Comment 2 Mark Hiner 2014-08-27 12:52:03 CDT
from vbindoka@bsd.uchicago.edu on #918:

>I have discovered the image window vanishes when part of the image processing is 
>being done in BatchMode=true. If I do as batch= false, the image window still 
>vanishes after adding a slice, but later reappears when my processing again 
>needs to write to it.

>This bug might be some crosstalk with existing and batchmode window display.
>...still trying to distill the macro code to the minimum to produce the 
>problem...