[ImageJ-builds] Build failed in Jenkins: Synchronize-and-deploy-IJ1 #5151

jenkins at imagej.net jenkins at imagej.net
Sun Nov 9 22:59:59 CST 2014 

See <http://jenkins.imagej.net/job/Synchronize-and-deploy-IJ1/5151/>

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[...truncated 435 lines...]
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+ cd source
+ pwd
+ export GIT_WORK_TREE=/data/devel/jenkins/jobs/Synchronize-and-deploy-IJ1/workspace/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/jobs/Synchronize-and-deploy-IJ1/workspace/tools/mac2unix.pl
+ find -type f -print0
+ xargs -0 git update-index --add
+ git write-tree
+ tree=8d526473875931a405dcf068f1fc57d7a9e9911a
+ export GIT_AUTHOR_NAME=Wayne Rasband
+ export GIT_AUTHOR_EMAIL=wsr at nih.gov
+ + git commit-tree 8d526473875931a405dcf068f1fc57d7a9e9911a -p 26e90d795f640058ee9b10cbc262dcaf255aa402
echo   • 1.49k 9 November 2014
      □ Thanks to Hermann-Josef Roeser, the Histogram command does a
        better job of plotting histograms with more than 256 bins. To
        get a dialog that allows you to specify the number of bins, run
        the Histogram command by pressing alt-h.
      □ Thanks to Michael Schmid, the Process>FFT>FD Math command
        limits the image choices to power of 2 sizes and spatially
        calibrates the output image.
      □ The table created by clicking on "List" in histogram windows is
        now a results table.
      □ Thanks to Michael Schmid, the "B&C" tool no longer disables
        undo.
      □ When running on Java 8, ImageJ uses the Rhino JavaScript engine
        instead of the built in, but incompatible, Nashorn engine.
      □ Thanks to Christophe Leterrier and Johannes Schindelin, the
        JavaScript interpreter now supports the load() function.
      □ Thanks to Philippe Carl, an ROI selected in the ROI Manager is
        deselected when it is removed from the image.
      □ Thanks to Thomas Templier, the ImageCanvas.setSourceRect()
        method now sets the magnification and is more robust (
        JavaScript example).
      □ Thanks to Johannes Schindelin, added the ij.macro.Debugger
        interface.
      □ Thanks to Glen MacDonald, the run("Make Binary") macro function
        now supports a 'slice' option that allows stacks to be
        converted to binary using custom thresholding methods (example
        ).
      □ Thanks to Glen MacDonald, fixed several bugs in the Make Binary
        and Convert to Mask commands.
      □ Thanks to Gerhard Hahm, fixed a bug that caused the
        imageCalculator() macro function to not select the first
        (output) image in batch mode macros.
      □ Thanks to Johan, fixed a bug that caused the calibration to not
        be updated after updating an existing plot window using the
        Plot.update() macro function.
      □ Thanks to Michael Schmid, fixed a bug that caused Edit>
        Selection>Create Mask to not maintain the spatial calibration
        when converting selections into masks.
      □ Thanks to Hermann-Josef Roeser, fixed a bug that caused ImageJ
        to not correctly open 16-bit, 4 samples per pixel TIFFs, such
        as those created by VueScan.
+ commit=95da22becbe1323269b5b11e8bda89593b64030a
+ git update-ref refs/heads/imagej 95da22becbe1323269b5b11e8bda89593b64030a
+ 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
+ HEAD=206a3a20544e2a02cfeea883891786da110bda3c
+ test -z 
+ git push . FETCH_HEAD:refs/heads/master
Everything up-to-date
+ git rev-parse refs/heads/master
+ HEAD=206a3a20544e2a02cfeea883891786da110bda3c
+ git rev-parse refs/heads/imagej
+ IJ1HEAD=95da22becbe1323269b5b11e8bda89593b64030a
+ git merge-base 95da22becbe1323269b5b11e8bda89593b64030a 206a3a20544e2a02cfeea883891786da110bda3c
+ test 95da22becbe1323269b5b11e8bda89593b64030a != 26e90d795f640058ee9b10cbc262dcaf255aa402
+ + sed -n s/^[^0-9]*\([^ 0-9A-Za-z] \)\?\([1-9][\.0-9]*.\)[^0-9A-Za-z].*$/\2/p
git log -1 --pretty=format:%s 95da22becbe1323269b5b11e8bda89593b64030a
+ VERSION=1.49k
+ git rev-parse --git-dir
+ export GIT_INDEX_FILE=.git/IJ1INDEX
+ git read-tree 95da22becbe1323269b5b11e8bda89593b64030a
+ MAVEN_URL=http://maven.imagej.net/content/groups/public
+ POM_IMAGEJ_URL=http://maven.imagej.net/content/groups/public/net/imagej/pom-imagej
+ + sed -n s/.*<release>\(.*\)<\/release>.*/\1/p
curl -s http://maven.imagej.net/content/groups/public/net/imagej/pom-imagej/maven-metadata.xml
+ POM_IMAGEJ_VERSION=5.0
+ git show 206a3a20544e2a02cfeea883891786da110bda3c:pom.xml
+ sed -e /^\t</s/\(<version>\).*\(<\/version>\)/\11.49k\2/ -e /<parent>/,/<\/pa/s/\(<version>\)[^<]*/\15.0/ -e /<parent>/,/<\/pa/s/\(<groupId>\)[^<]*/\1net.imagej/ -e /<parent>/,/<\/pa/s/\(<artifactId>\)[^<]*/\1pom-imagej/
+ git hash-object -w .git/IJ1INDEX.pom.new
+ POMHASH=ae0a667ba805ef8c13c7f7c3c6f534520495abe7
+ printf 100644 ae0a667ba805ef8c13c7f7c3c6f534520495abe7 0\tpom.xml\n
+ git rev-parse 206a3a20544e2a02cfeea883891786da110bda3c:.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 1.49k
+ git write-tree
+ TREE=b671a60b2b9f895b84a1b753f05c161570acaaa8
+ git commit-tree b671a60b2b9f895b84a1b753f05c161570acaaa8 -p 206a3a20544e2a02cfeea883891786da110bda3c -p 95da22becbe1323269b5b11e8bda89593b64030a
+ NEWHEAD=dbb542f93aada1a87b8df068b3c7fd1a709fd949
+ git update-ref -m Synchronize with ImageJ1 refs/heads/master dbb542f93aada1a87b8df068b3c7fd1a709fd949 206a3a20544e2a02cfeea883891786da110bda3c
+ git tag -a -m v1.49k v1.49k dbb542f93aada1a87b8df068b3c7fd1a709fd949
+ test -z 
+ test -n 
+ git push git at dev.imagejdev.org:imageja.git imagej master v1.49k
+ ERR=ssh: connect to host dev.imagejdev.org port 22: Connection timed out
fatal: The remote end hung up unexpectedly
+ echo ssh: connect to host dev.imagejdev.org port 22: Connection timed out
fatal: The remote end hung up unexpectedlyCould not push
ssh: connect to host dev.imagejdev.org port 22: Connection timed out
fatal: The remote end hung up unexpectedlyCould not push
+ exit 1
Build step 'Execute shell' marked build as failure

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