[ImageJ-builds] Build failed in Jenkins: Synchronize-and-deploy-IJ1 #5168

jenkins at imagej.net jenkins at imagej.net
Tue Oct 27 13:50:47 CDT 2015 

See <http://jenkins.imagej.net/job/Synchronize-and-deploy-IJ1/5168/changes>

Changes:

[Curtis Rueden]   • 1.50c 27 September 2015

------------------------------------------
[...truncated 488 lines...]
  inflating: source/ij/plugin/filter/ParticleAnalyzer.java  
  inflating: source/ij/plugin/filter/PlugInFilter.java  
  inflating: source/ij/plugin/filter/PlugInFilterRunner.java  
  inflating: source/ij/plugin/filter/Printer.java  
  inflating: source/ij/plugin/filter/RGBStackSplitter.java  
  inflating: source/ij/plugin/filter/RankFilters.java  
  inflating: source/ij/plugin/filter/RoiWriter.java  
  inflating: source/ij/plugin/filter/Rotator.java  
  inflating: source/ij/plugin/filter/SaltAndPepper.java  
  inflating: source/ij/plugin/filter/ScaleDialog.java  
  inflating: source/ij/plugin/filter/Shadows.java  
  inflating: source/ij/plugin/filter/StackLabeler.java  
  inflating: source/ij/plugin/filter/ThresholdToSelection.java  
  inflating: source/ij/plugin/filter/Transformer.java  
  inflating: source/ij/plugin/filter/Translator.java  
  inflating: source/ij/plugin/filter/UnsharpMask.java  
  inflating: source/ij/plugin/filter/Writer.java  
  inflating: source/ij/plugin/filter/XYWriter.java  
  inflating: source/ij/plugin/frame/Channels.java  
  inflating: source/ij/plugin/frame/ColorPicker.java  
  inflating: source/ij/plugin/frame/ColorThresholder.java  
  inflating: source/ij/plugin/frame/ContrastAdjuster.java  
  inflating: source/ij/plugin/frame/Editor.java  
  inflating: source/ij/plugin/frame/Fitter.java  
  inflating: source/ij/plugin/frame/LineWidthAdjuster.java  
  inflating: source/ij/plugin/frame/MemoryMonitor.java  
  inflating: source/ij/plugin/frame/PasteController.java  
  inflating: source/ij/plugin/frame/PlugInDialog.java  
  inflating: source/ij/plugin/frame/PlugInFrame.java  
  inflating: source/ij/plugin/frame/Recorder.java  
  inflating: source/ij/plugin/frame/RoiManager.java  
  inflating: source/ij/plugin/frame/SyncWindows.java  
  inflating: source/ij/plugin/frame/ThresholdAdjuster.java  
  inflating: source/ij/plugin/tool/ArrowTool.java  
  inflating: source/ij/plugin/tool/BrushTool.java  
  inflating: source/ij/plugin/tool/MacroToolRunner.java  
  inflating: source/ij/plugin/tool/OverlayBrushTool.java  
  inflating: source/ij/plugin/tool/PixelInspectionTool.java  
  inflating: source/ij/plugin/tool/PlugInTool.java  
  inflating: source/ij/plugin/tool/RoiRotationTool.java  
  inflating: source/ij/process/AutoThresholder.java  
  inflating: source/ij/process/BinaryInterpolator.java  
  inflating: source/ij/process/BinaryProcessor.java  
  inflating: source/ij/process/Blitter.java  
  inflating: source/ij/process/ByteBlitter.java  
  inflating: source/ij/process/ByteProcessor.java  
  inflating: source/ij/process/ByteStatistics.java  
  inflating: source/ij/process/ColorBlitter.java  
  inflating: source/ij/process/ColorProcessor.java  
  inflating: source/ij/process/ColorSpaceConverter.java  
  inflating: source/ij/process/ColorStatistics.java  
  inflating: source/ij/process/DownsizeTable.java  
  inflating: source/ij/process/EllipseFitter.java  
  inflating: source/ij/process/FHT.java  
  inflating: source/ij/process/FloatBlitter.java  
  inflating: source/ij/process/FloatPolygon.java  
  inflating: source/ij/process/FloatProcessor.java  
  inflating: source/ij/process/FloatStatistics.java  
  inflating: source/ij/process/FloodFiller.java  
  inflating: source/ij/process/ImageConverter.java  
  inflating: source/ij/process/ImageProcessor.java  
  inflating: source/ij/process/ImageStatistics.java  
  inflating: source/ij/process/LUT.java  
  inflating: source/ij/process/MedianCut.java  
  inflating: source/ij/process/PolygonFiller.java  
  inflating: source/ij/process/ShortBlitter.java  
  inflating: source/ij/process/ShortProcessor.java  
  inflating: source/ij/process/ShortStatistics.java  
  inflating: source/ij/process/StackConverter.java  
  inflating: source/ij/process/StackProcessor.java  
  inflating: source/ij/process/StackStatistics.java  
  inflating: source/ij/process/TypeConverter.java  
  inflating: source/ij/text/TextCanvas.java  
  inflating: source/ij/text/TextPanel.java  
  inflating: source/ij/text/TextWindow.java  
  inflating: source/ij/util/ArrayUtil.java  
  inflating: source/ij/util/DicomTools.java  
  inflating: source/ij/util/Java2.java  
  inflating: source/ij/util/StringSorter.java  
  inflating: source/ij/util/ThreadUtil.java  
  inflating: source/ij/util/Tools.java  
  inflating: source/ij/util/WildcardMatch.java  
  inflating: source/images/about.jpg  
  inflating: source/images/microscope.gif  
  inflating: source/macros/AddParticles.txt  
  inflating: source/macros/Circle_Tool.txt  
  inflating: source/macros/ConvertStackToBinary.txt  
  inflating: source/macros/DeveloperMenuTool.txt  
  inflating: source/macros/Filter_Plugin.src  
  inflating: source/macros/FloodFillTool.txt  
  inflating: source/macros/LUTMenuTool.txt  
  inflating: source/macros/MoveSelection.txt  
  inflating: source/macros/My_Plugin.src  
  inflating: source/macros/Plugin_Frame.src  
  inflating: source/macros/Prototype_Tool.src  
  inflating: source/macros/Search.txt  
  inflating: source/macros/ShowAllLuts.txt  
  inflating: source/macros/SprayCanTool.txt  
  inflating: source/macros/StacksMenuTool.txt  
  inflating: source/macros/StartupMacros.txt  
  inflating: source/macros/TimeStamp.ijm  
  inflating: source/plugins/MacAdapter.class  
  inflating: source/plugins/MacAdapter.source  
  inflating: source/plugins/MacClipboard.class  
  inflating: source/plugins/MacClipboard.source  
  inflating: source/release-notes.html  
+ cd source
+ pwd
+ export GIT_WORK_TREE=/data/devel/jenkins-maven/workspace/Synchronize-and-deploy-IJ1/tmpCommit/source
+ find ( -name .DS_Store -name .FBCIndex -o -name .FBCLockFolder -o -name .gdb_history ) -exec rm -rf {} ;
find: `./.FBCLockFolder': No such file or directory
+ echo No temporary files removed
No temporary files removed
+ find -type f -print0
+ xargs -0 perl /data/devel/jenkins-maven/workspace/Synchronize-and-deploy-IJ1/tools/mac2unix.pl
+ + xargsfind -0 git update-index --add
 -type f -print0
+ git write-tree
+ tree=0d0d9e8b867f4b49be79b0c23c58f6adeb5ef5b8
+ export GIT_AUTHOR_NAME=Wayne Rasband
+ export GIT_AUTHOR_EMAIL=wsr at nih.gov
+ + git commit-tree 0d0d9e8b867f4b49be79b0c23c58f6adeb5ef5b8 -p f298dd3cc14d841385208f0de6e4e035f1626ca0
echo   • 1.50d 25 October 2015
      □ Thanks to Peter Haub, added the Selection Rotator tool to the
        Toolbar's ">>" menu. To move the selection with this tool, hold
        down the alt or shift key.
      □ The Edit>Options>Point Tool dialog, in multi-point mode, is now
        non-modal and has a "Counter" drop down menu. As a shortcut for
        opening this dialog, double click on the multi-point tool icon.
      □ A point in a polygon, polyline or point selection can now be
        deleted by either alt-clicking or control-clicking.
      □ The File>Import>Raw command now uses "smart recording" (default
        options are not recorded).
      □ Added the Help>Examples>Autorun checkbox menu item.
      □ Thanks to Michael Schmid, the AVI Reader now opens most
        oversized (>4GB) ImageJ AVI 1 files and the AVI Writer uses the
        AVI 2 format, which is AVI 1 compatible for files up to approx
        0.9 GB. Use the Virtual Test Stack plugin to create
        multi-gigabyte test stacks.
      □ Thanks to Bill Christens-Barry, added the
        WaitForUserDialog.setNextLocation(x,y) method (macro example).
      □ Added the add(Roi,name) and remove(name) methods to the Overlay
        class.
      □ Added the ThresholdAdjuster.setMethod() method.
      □ Thanks to Kota Miura, worked around Java 8 bugs that caused
        cut, copy and paste to not work in the curve fitter (Analyze>
        Tools>Curve Fitting).
      □ Thanks to Jan Eglinger, fixed a bug that caused the Image>Scale
        command to ignore the "z=" option when run from a macro.
      □ Thanks to Stein Rorvik, fixed a bug that caused calibration
        bars (Analyze>Tools>Calibration Bar) to remove existing
        overlays.
      □ Fixed a bug that caused the Process>Math>Macro command to not
        work correctly with 16-bit and 32-bit images if the macro code
        called the getPixel() function.
      □ Fixed a bug that caused the Rotate 90 Degrees Right and Rotate
        90 Degrees Left commands to not correctly handle non-zero
        origins.
      □ Fixed a bug that caused polygon and polyline selections to lose
        properties like stroke color and stroke width after one of the
        selection's points had been deleted.
      □ Thanks to Vytas Bindokas, fixed a bug that caused the
        waitForUser() macro function to fail on Windows.
+ commit=a7ae3841d809c6830465e086a25b693ff5be039b
+ git update-ref refs/heads/imagej a7ae3841d809c6830465e086a25b693ff5be039b
+ cd ../..
+ rm -rf tmpCommit tmpIndex
+ dirname tools/jenkins-job.sh
+ sh -x tools/sync-with-imagej.sh
+ URL=git://github.com/imagej/ImageJA
+ BRANCH=refs/heads/master
+ IJ1BRANCH=refs/heads/imagej
+ test a--wayne = a
+ NEED_TO_UPDATE_WORKING_TREE=
+ git config --bool core.bare
+ test false = true
+ git symbolic-ref HEAD
+ test refs/heads/master != 
+ git fetch git://github.com/imagej/ImageJA refs/heads/master
+ ERROR=From git://github.com/imagej/ImageJA
 * branch            master     -> FETCH_HEAD
+ git rev-parse refs/heads/master
fatal: ambiguous argument 'refs/heads/master': unknown revision or path not in the working tree.
Use '--' to separate paths from revisions
+ HEAD=refs/heads/master
+ git rev-parse FETCH_HEAD
+ HEAD=77723adf716ab326f68f7d0ee533ff11af6bf84f
+ git update-ref -m Initialize synchronization refs/heads/master 77723adf716ab326f68f7d0ee533ff11af6bf84f
+ test -z 
+ git push . FETCH_HEAD:refs/heads/master
Everything up-to-date
+ git rev-parse refs/heads/master
+ HEAD=77723adf716ab326f68f7d0ee533ff11af6bf84f
+ git rev-parse refs/heads/imagej
+ IJ1HEAD=a7ae3841d809c6830465e086a25b693ff5be039b
+ git merge-base a7ae3841d809c6830465e086a25b693ff5be039b 77723adf716ab326f68f7d0ee533ff11af6bf84f
+ test a7ae3841d809c6830465e086a25b693ff5be039b != f298dd3cc14d841385208f0de6e4e035f1626ca0
+ git log -1 --pretty=format:%s a7ae3841d809c6830465e086a25b693ff5be039b
+ sed -n s/^[^0-9]*\([^ 0-9A-Za-z] \)\?\([1-9][\.0-9]*.\)[^0-9A-Za-z].*$/\2/p
+ VERSION=1.50d
+ git rev-parse --git-dir
+ export GIT_INDEX_FILE=.git/IJ1INDEX
+ git read-tree a7ae3841d809c6830465e086a25b693ff5be039b
+ MAVEN_URL=http://maven.imagej.net/content/groups/public
+ POM_IMAGEJ_URL=http://maven.imagej.net/content/groups/public/net/imagej/pom-imagej
+ curl -s http://maven.imagej.net/content/groups/public/net/imagej/pom-imagej/maven-metadata.xml
+ sed -n s/.*<release>\(.*\)<\/release>.*/\1/p
+ POM_IMAGEJ_VERSION=13.3.0
+ git show 77723adf716ab326f68f7d0ee533ff11af6bf84f:pom.xml
+ sed -e /^\t</s/\(<version>\).*\(<\/version>\)/\11.50d\2/ -e /<parent>/,/<\/pa/s/\(<version>\)[^<]*/\113.3.0/ -e /<parent>/,/<\/pa/s/\(<groupId>\)[^<]*/\1net.imagej/ -e /<parent>/,/<\/pa/s/\(<artifactId>\)[^<]*/\1pom-imagej/
+ git hash-object -w .git/IJ1INDEX.pom.new
+ POMHASH=8382eb504cf3195653c2333b367f7ce4eb8001e7
+ printf 100644 8382eb504cf3195653c2333b367f7ce4eb8001e7 0\tpom.xml\n
+ git rev-parse 77723adf716ab326f68f7d0ee533ff11af6bf84f:.gitignore
+ GITIGNORE=beef00d016539f0af7e0cb61be0ef1028cc8db48
+ printf 100644 beef00d016539f0af7e0cb61be0ef1028cc8db48 0\t.gitignore\n
+ git ls-files --stage
+ mv .git/IJ1INDEX .git/IJ1INDEX.old
+ sed -e s~\t\(.*\.java\)$~\tsrc/main/java/\1~ -e s~\tplugins/\(.*\)\.source$~\tsrc/main/java/\1.java~ -e s~\t\(IJ_Props.txt\|macros/\)~\tsrc/main/resources/\1~ -e s~\timages/~\tsrc/main/resources/~ -e s~\t\(MANIFEST.MF\)$~\tsrc/main/resources/META-INF/\1~ -e /\t\(plugins\/.*\.class\|.FBCIndex\|ij\/plugin\/RandomOvals.txt\)$/d
+ git update-index --index-info
+ echo Synchronize with ImageJ 1.50d
+ git write-tree
+ TREE=99cb301ee91d6f895f1f55efdf229dfc1d6af468
+ git commit-tree 99cb301ee91d6f895f1f55efdf229dfc1d6af468 -p 77723adf716ab326f68f7d0ee533ff11af6bf84f -p a7ae3841d809c6830465e086a25b693ff5be039b
+ NEWHEAD=374a378e7c2781d16bb32658c3e85e88e6afdc74
+ git update-ref -m Synchronize with ImageJ1 refs/heads/master 374a378e7c2781d16bb32658c3e85e88e6afdc74 77723adf716ab326f68f7d0ee533ff11af6bf84f
+ git tag -a -m v1.50d v1.50d 374a378e7c2781d16bb32658c3e85e88e6afdc74
+ test -z 
+ test -n 
+ git push git at github.com:imagej/ImageJA imagej master v1.50d
+ cd tools
+ git push git at github.com:imagej/ImageJA tools
+ ERR=To git at github.com:imagej/ImageJA
   f298dd3..a7ae384  imagej -> imagej
   77723ad..374a378  master -> master
 * [new tag]         v1.50d -> v1.50d
Everything up-to-date
+ NEXUS_URL=http://maven.imagej.net/
+ SONATYPE_PROXY=http://maven.imagej.net//service/local/data_cache/repositories/sonatype/content
+ git stash
No local changes to save
+ git checkout master
Previous HEAD position was 77723ad... Synchronize with ImageJ 1.50c
Switched to branch 'master'
+ git stash
No local changes to save
+ mvn clean
No info for jenkins at imagej.net
Build step 'Execute shell' marked build as failure

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