[ImageJ-builds] Build failed in Jenkins: Fiji-daily #803

jenkins at imagej.net jenkins at imagej.net
Tue Jul 9 00:28:16 CDT 2013 

See <http://jenkins.imagej.net/job/Fiji-daily/803/changes>

Changes:

[Ignacio Arganda-Carreras] Analyze Skeleton: fixed bug when pruning end-point branches on an image without end points reported by Jan Eglinger.

[Johannes Schindelin] Fix second (and later) runs of Temporal-Color Code

[Johannes Schindelin] Build.sh: work around Git for Windows' lack of stat(1)

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[...truncated 277 lines...]
Removing src-plugins/Interactive_3D_Surface_Plot/target/
Removing src-plugins/IsoData_Classifier/target/
Removing src-plugins/JRuby_Interpreter/target/
Removing src-plugins/Javascript_/target/
Removing src-plugins/Jython_Interpreter/target/
Removing src-plugins/Kuwahara_Filter/target/
Removing src-plugins/LSM_Reader/target/
Removing src-plugins/LSM_Toolbox/target/
Removing src-plugins/Lasso_and_Blow_Tool/target/
Removing src-plugins/Linear_Kuwahara/target/
Removing src-plugins/LocalThickness_/target/
Removing src-plugins/MTrack2_/target/
Removing src-plugins/MTrackJ_/target/
Removing src-plugins/M_I_P/target/
Removing src-plugins/Manual_Tracking/target/
Removing src-plugins/MosaicJ_/target/
Removing src-plugins/Multi_Kymograph/target/
Removing src-plugins/PIV_analyser/target/
Removing src-plugins/PointPicker_/target/
Removing src-plugins/QuickPALM_/target/
Removing src-plugins/RATS_/target/
Removing src-plugins/RandomJ_/target/
Removing src-plugins/Reconstruct_Reader/target/
Removing src-plugins/Refresh_Javas/target/
Removing src-plugins/SPIM_Opener/target/
Removing src-plugins/SPIM_Registration/target/
Removing src-plugins/Samples_/target/
Removing src-plugins/Scala_Interpreter/target/
Removing src-plugins/Script_Editor/target/
Removing src-plugins/Series_Labeler/target/
Removing src-plugins/SheppLogan_/target/
Removing src-plugins/Sholl_Analysis/target/
Removing src-plugins/Simple_Neurite_Tracer/target/
Removing src-plugins/Siox_Segmentation/target/
Removing src-plugins/Skeletonize3D_/target/
Removing src-plugins/Snakuscule_/target/
Removing src-plugins/SplineDeformationGenerator_/target/
Removing src-plugins/StackReg_/target/
Removing src-plugins/Stack_Manipulation/target/
Removing src-plugins/Statistical_Region_Merging/target/
Removing src-plugins/Stitching_/target/
Removing src-plugins/Sync_Win/target/
Removing src-plugins/Thread_Killer/target/
Removing src-plugins/Threshold_Colour/target/
Removing src-plugins/Time_Stamper/target/
Removing src-plugins/ToAST_/target/
Removing src-plugins/TopoJ_/target/
Removing src-plugins/TrackMate_/target/
Removing src-plugins/Trainable_Segmentation/target/
Removing src-plugins/TransformJ_/target/
Removing src-plugins/TurboReg_/target/
Removing src-plugins/UnwarpJ_/target/
Removing src-plugins/Updater_Fix/target/
Removing src-plugins/VIB-lib/target/
Removing src-plugins/VIB_/target/
Removing src-plugins/Vaa3d_Reader/target/
Removing src-plugins/Video_Editing/target/
Removing src-plugins/View5D_/target/
Removing src-plugins/Volume_Calculator/target/
Removing src-plugins/Volume_Viewer/target/
Removing src-plugins/bUnwarpJ_/target/
Removing src-plugins/blockmatching_/target/
Removing src-plugins/fake/target/
Removing src-plugins/fiji-compat/target/
Removing src-plugins/fiji-lib/target/
Removing src-plugins/fiji-scripting/target/
Removing src-plugins/imagescience/target/
Removing src-plugins/imageware/target/
Removing src-plugins/jep/target/
Removing src-plugins/legacy-imglib1/target/
Removing src-plugins/level_sets/target/
Removing src-plugins/mij/target/
Removing src-plugins/pal-optimization/target/
Removing src-plugins/panorama_/target/
Removing src-plugins/register_virtual_stack_slices/target/
Removing src-plugins/registration_3d/target/
Removing src-plugins/target/
Removing src-plugins/wavelets/target/
Removing src-plugins/weave_jy2java/target/
+ git submodule foreach git clean -x -d -f
Entering 'java/linux'
Entering 'java/linux-amd64'
Entering 'java/macosx-java3d'
Entering 'java/win32'
Entering 'java/win64'
Entering 'modules/TrakEM2'
Removing T2-NIT/target/
Removing T2-TreelineGraph/target/
Removing TrakEM2_/target/
Removing VectorString/target/
Entering 'modules/ij-plugins'
Entering 'modules/mpicbg'
Removing mpicbg/target/
Removing mpicbg_/target/
+ sh -x ./Build.sh -Dminimaven.verbose=true -Dminimaven.updateinterval=1 --
+ set -a
+ unset CDPATH
+ dirname ./Build.sh
+ CWD=.
+ PATHSEP=:
+ uname -s
+ UNAME_S=Linux
+ LAUNCHER=bin/ImageJ.sh
+ FIJILAUNCHER=
+ uname -m
+ platform=linux64
+ java_submodule=linux-amd64
+ exe=
+ LAUNCHER=ImageJ-linux64
+ FIJILAUNCHER=fiji-linux64
+ FIJILAUNCHER=fiji-linux64
+ test -n linux64
+ test -z 
+ get_java_home
+ test -d 
+ test -n linux-amd64
+ test -d ./java/linux-amd64
+ head -n 1
+ ls -t ./java/linux-amd64
+ echo ./java/linux-amd64/jdk1.6.0_24/jre
+ JAVA_HOME=./java/linux-amd64/jdk1.6.0_24/jre
+ test -z linux64
+ test -f ./java/linux-amd64/jdk1.6.0_24/jre/lib/tools.jar
+ test -f ./java/linux-amd64/jdk1.6.0_24/jre/../lib/tools.jar
+ test -n ./java/linux-amd64/jdk1.6.0_24/jre
+ test -d ./java/linux-amd64/jdk1.6.0_24/jre
+ test -d ./java/linux-amd64/jdk1.6.0_24/jre
+ test -d ./java/linux-amd64/jdk1.6.0_24/jre/jre
+ export PATH=./java/linux-amd64/jdk1.6.0_24/jre/bin:/usr/local/sbin:/usr/local/bin:/usr/bin:/usr/sbin:/sbin:/bin
+ get_java_home
+ test -d ./java/linux-amd64/jdk1.6.0_24/jre
+ echo ./java/linux-amd64/jdk1.6.0_24/jre
+ get_java_home
+ test -d ./java/linux-amd64/jdk1.6.0_24/jre
+ echo ./java/linux-amd64/jdk1.6.0_24/jre
+ PATH=./java/linux-amd64/jdk1.6.0_24/jre/bin:/usr/local/sbin:/usr/local/bin:/usr/bin:/usr/sbin:/sbin:/bin:./java/linux-amd64/jdk1.6.0_24/jre/bin:./java/linux-amd64/jdk1.6.0_24/jre/../bin
+ export PATH
+ cd .
+ pwd
+ CWD=/data/devel/jenkins/jobs/Fiji-daily/workspace
+ ARGV0=/data/devel/jenkins/jobs/Fiji-daily/workspace/./Build.sh
+ SCIJAVA_COMMON=/data/devel/jenkins/jobs/Fiji-daily/workspace/modules/scijava-common
+ MAVEN_HELPER=/data/devel/jenkins/jobs/Fiji-daily/workspace/modules/scijava-common/bin/maven-helper.sh
+ force_update=
+ maven_helper property-from-pom /data/devel/jenkins/jobs/Fiji-daily/workspace/pom.xml fiji.version
+ uptodate /data/devel/jenkins/jobs/Fiji-daily/workspace/./Build.sh /data/devel/jenkins/jobs/Fiji-daily/workspace/modules/scijava-common/bin/maven-helper.sh
+ test -f /data/devel/jenkins/jobs/Fiji-daily/workspace/modules/scijava-common/bin/maven-helper.sh
+ test /data/devel/jenkins/jobs/Fiji-daily/workspace/modules/scijava-common/bin/maven-helper.sh -nt /data/devel/jenkins/jobs/Fiji-daily/workspace/./Build.sh
+ force_update=t
+ test -d /data/devel/jenkins/jobs/Fiji-daily/workspace/modules/scijava-common/.git
+ cd /data/devel/jenkins/jobs/Fiji-daily/workspace/modules/scijava-common
+ git rev-parse --symbolic-full-name HEAD
+ test arefs/heads/master != arefs/heads/master
+ git pull -k
>From git://github.com/scijava/scijava-common
   291210c..2ae35fe  master     -> origin/master
Updating 291210c..2ae35fe
Fast-forward
 bin/maven-helper.sh |   12 +++++++++---
 1 file changed, 9 insertions(+), 3 deletions(-)
+ test ! -f /data/devel/jenkins/jobs/Fiji-daily/workspace/modules/scijava-common/bin/maven-helper.sh
+ touch /data/devel/jenkins/jobs/Fiji-daily/workspace/modules/scijava-common/bin/maven-helper.sh
+ test 3 = 0
+ sh /data/devel/jenkins/jobs/Fiji-daily/workspace/modules/scijava-common/bin/maven-helper.sh property-from-pom /data/devel/jenkins/jobs/Fiji-daily/workspace/pom.xml fiji.version
+ FIJI_VERSION=2.0.0-SNAPSHOT
+ maven_helper property-from-pom /data/devel/jenkins/jobs/Fiji-daily/workspace/pom.xml imagej.version
+ uptodate /data/devel/jenkins/jobs/Fiji-daily/workspace/./Build.sh /data/devel/jenkins/jobs/Fiji-daily/workspace/modules/scijava-common/bin/maven-helper.sh
+ test -f /data/devel/jenkins/jobs/Fiji-daily/workspace/modules/scijava-common/bin/maven-helper.sh
+ test /data/devel/jenkins/jobs/Fiji-daily/workspace/modules/scijava-common/bin/maven-helper.sh -nt /data/devel/jenkins/jobs/Fiji-daily/workspace/./Build.sh
+ test 3 = 0
+ sh /data/devel/jenkins/jobs/Fiji-daily/workspace/modules/scijava-common/bin/maven-helper.sh property-from-pom /data/devel/jenkins/jobs/Fiji-daily/workspace/pom.xml imagej.version
+ IMAGEJ_VERSION=
+ maven_update sc.fiji:javac:2.0.0-SNAPSHOT net.imagej:ij-minimaven:
+ artifactId=javac:2.0.0-SNAPSHOT
+ version=2.0.0-SNAPSHOT
+ artifactId=javac
+ path=jars/javac-2.0.0-SNAPSHOT.jar
+ test -z 
+ cd /data/devel/jenkins/jobs/Fiji-daily/workspace
+ test -f jars/javac.jar
+ test ajars/javac-[0-9]*.jar = ajars/javac-2.0.0-SNAPSHOT.jar
+ test -f jars/javac-[0-9]*.jar
+ continue
+ uptodate /data/devel/jenkins/jobs/Fiji-daily/workspace/./Build.sh jars/javac-2.0.0-SNAPSHOT.jar
+ test -f jars/javac-2.0.0-SNAPSHOT.jar
+ echo Downloading sc.fiji:javac:2.0.0-SNAPSHOT
Downloading sc.fiji:javac:2.0.0-SNAPSHOT
+ cd jars/
+ maven_helper install sc.fiji:javac:2.0.0-SNAPSHOT
+ uptodate /data/devel/jenkins/jobs/Fiji-daily/workspace/./Build.sh /data/devel/jenkins/jobs/Fiji-daily/workspace/modules/scijava-common/bin/maven-helper.sh
+ test -f /data/devel/jenkins/jobs/Fiji-daily/workspace/modules/scijava-common/bin/maven-helper.sh
+ test /data/devel/jenkins/jobs/Fiji-daily/workspace/modules/scijava-common/bin/maven-helper.sh -nt /data/devel/jenkins/jobs/Fiji-daily/workspace/./Build.sh
+ test 2 = 0
+ sh /data/devel/jenkins/jobs/Fiji-daily/workspace/modules/scijava-common/bin/maven-helper.sh install sc.fiji:javac:2.0.0-SNAPSHOT
+ test ! -f jars/javac-2.0.0-SNAPSHOT.jar
+ echo Failure to download jars/javac-2.0.0-SNAPSHOT.jar
Failure to download jars/javac-2.0.0-SNAPSHOT.jar
+ exit 1
+ artifactId=ij-minimaven:
+ version=
+ artifactId=ij-minimaven
+ path=jars/ij-minimaven-.jar
+ test -z 
+ cd /data/devel/jenkins/jobs/Fiji-daily/workspace
+ test -f jars/ij-minimaven.jar
+ test ajars/ij-minimaven-[0-9]*.jar = ajars/ij-minimaven-.jar
+ test -f jars/ij-minimaven-[0-9]*.jar
+ continue
+ uptodate /data/devel/jenkins/jobs/Fiji-daily/workspace/./Build.sh jars/ij-minimaven-.jar
+ test -f jars/ij-minimaven-.jar
+ echo Downloading net.imagej:ij-minimaven:
Downloading net.imagej:ij-minimaven:
+ cd jars/
+ maven_helper install net.imagej:ij-minimaven:
+ uptodate /data/devel/jenkins/jobs/Fiji-daily/workspace/./Build.sh /data/devel/jenkins/jobs/Fiji-daily/workspace/modules/scijava-common/bin/maven-helper.sh
+ test -f /data/devel/jenkins/jobs/Fiji-daily/workspace/modules/scijava-common/bin/maven-helper.sh
+ test /data/devel/jenkins/jobs/Fiji-daily/workspace/modules/scijava-common/bin/maven-helper.sh -nt /data/devel/jenkins/jobs/Fiji-daily/workspace/./Build.sh
+ test 2 = 0
+ sh /data/devel/jenkins/jobs/Fiji-daily/workspace/modules/scijava-common/bin/maven-helper.sh install net.imagej:ij-minimaven:
+ test ! -f jars/ij-minimaven-.jar
+ echo Failure to download jars/ij-minimaven-.jar
Failure to download jars/ij-minimaven-.jar
+ exit 1
+ OPTIONS=-Dimagej.app.directory="/data/devel/jenkins/jobs/Fiji-daily/workspace"
+ test 3 -gt 0
+ OPTIONS=-Dimagej.app.directory="/data/devel/jenkins/jobs/Fiji-daily/workspace" -Dminimaven.verbose=true
+ shift
+ test 2 -gt 0
+ OPTIONS=-Dimagej.app.directory="/data/devel/jenkins/jobs/Fiji-daily/workspace" -Dminimaven.verbose=true -Dminimaven.updateinterval=1
+ shift
+ test 1 -gt 0
+ break
+ test 1 = 0
+ artifactId=--
+ artifactId=--
+ artifactId=--
+ eval sh /data/devel/jenkins/jobs/Fiji-daily/workspace/bin/ImageJ.sh --mini-maven -Dimagej.app.directory="/data/devel/jenkins/jobs/Fiji-daily/workspace" -Dminimaven.verbose=true -Dminimaven.updateinterval=1 -DartifactId=-- install
+ sh /data/devel/jenkins/jobs/Fiji-daily/workspace/bin/ImageJ.sh --mini-maven -Dimagej.app.directory=/data/devel/jenkins/jobs/Fiji-daily/workspace -Dminimaven.verbose=true -Dminimaven.updateinterval=1 -DartifactId=-- install
Exception in thread "main" java.lang.NoClassDefFoundError: imagej/build/MiniMaven
Caused by: java.lang.ClassNotFoundException: imagej.build.MiniMaven
	at java.net.URLClassLoader$1.run(URLClassLoader.java:202)
	at java.security.AccessController.doPrivileged(Native Method)
	at java.net.URLClassLoader.findClass(URLClassLoader.java:190)
	at java.lang.ClassLoader.loadClass(ClassLoader.java:307)
	at sun.misc.Launcher$AppClassLoader.loadClass(Launcher.java:301)
	at java.lang.ClassLoader.loadClass(ClassLoader.java:248)
Could not find the main class: imagej.build.MiniMaven.  Program will exit.
Build step 'Execute shell' marked build as failure
Archiving artifacts

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