[ImageJ-builds] Build failed in Jenkins: TrackMate #157
jenkins at imagej.net
jenkins at imagej.net
Thu Jan 15 02:03:43 CST 2015
See <http://jenkins.imagej.net/job/TrackMate/157/changes>
Changes:
[Jean-Yves Tinevez] WIP: dummy toy for Kalman filter using Jama structures.
[Jean-Yves Tinevez] WIP: tool to play with Kalman tracking.
[Jean-Yves Tinevez] Kalman tracker: make a specific class and deals with occlusion.
[Jean-Yves Tinevez] WIP: making the Klman tracker deal with the whole model.
[Jean-Yves Tinevez] JaqamanLinkingCostMatrixCreator: properly deal with no candidates.
[Jean-Yves Tinevez] The Kalman tracker deals with the whole model.
[Jean-Yves Tinevez] KalmanFilter: fix bug: you need to update the predicted state.
[Jean-Yves Tinevez] Prevent bug when outputting the JaqmanLinker output.
[Jean-Yves Tinevez] KalmanTracker: prevent bug when all costs are 0.
[Jean-Yves Tinevez] An interactive test specific for the KalmanTracker.
[Jean-Yves Tinevez] Move the test to the right package.
[Jean-Yves Tinevez] More radical interactive test.
[Jean-Yves Tinevez] Interactive test that show the initiation problem.
[Jean-Yves Tinevez] Also track last frame.
[Jean-Yves Tinevez] Polish the Kalman tracker.
[Jean-Yves Tinevez] One more interactive test for the Kalman tracker.
[Jean-Yves Tinevez] Brown paper bag fix: forgot to update the cavariance matrix.
[Jean-Yves Tinevez] The Kalman filter returns an estimate of the pos and velocity error.
[Jean-Yves Tinevez] Another interactive test for the Kalman tracker.
[Jean-Yves Tinevez] Integrate the Kalman tracker into Fiji.
[Jean-Yves Tinevez] Another simple interactive test for the Kalman tracker.
[Jean-Yves Tinevez] Fix a bug in KalmanTracker.
[Jean-Yves Tinevez] Fix the logger of the ISBI challenger exporter.
------------------------------------------
Started by an SCM change
Building on master in workspace <http://jenkins.imagej.net/job/TrackMate/ws/>
Fetching changes from the remote Git repository
Fetching upstream changes from git://github.com/fiji/TrackMate
Checking out Revision 94aead7ceb19d3346002e434d2a0c4ff29d7b44b (origin/master)
[workspace] $ /bin/sh -xe /tmp/hudson6420844120198311152.sh
+ git clean -dfx
Removing target/
[workspace] $ /bin/sh -xe /tmp/hudson2958159864842972213.sh
+ mvn -U -Pdeploy-to-imagej deploy
[INFO] Scanning for projects...
[INFO]
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[INFO] Building plugins/TrackMate_.jar 2.7.1-SNAPSHOT
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[INFO]
[INFO] --- maven-enforcer-plugin:1.3.1:enforce (enforce-rules) @ TrackMate_ ---
[INFO] artifact com.github.jnr:jffi: checking for updates from imagej.public
[INFO] artifact com.github.jnr:jffi: checking for updates from central
[INFO] artifact com.github.jnr:jffi: checking for updates from imagej.public
[INFO] artifact com.github.jnr:jffi: checking for updates from central
[INFO] artifact com.github.jnr:jnr-x86asm: checking for updates from imagej.public
[INFO] artifact com.github.jnr:jnr-x86asm: checking for updates from central
Downloading: http://maven.imagej.net/content/groups/public/com/sun/tools/1.4.2/tools-1.4.2.pom
Downloading: http://repo.maven.apache.org/maven2/com/sun/tools/1.4.2/tools-1.4.2.pom
[INFO] artifact com.github.jnr:jffi: checking for updates from imagej.public
[INFO] artifact com.github.jnr:jffi: checking for updates from central
[INFO] artifact com.github.jnr:jffi: checking for updates from imagej.public
[INFO] artifact com.github.jnr:jffi: checking for updates from central
[INFO] artifact com.github.jnr:jnr-x86asm: checking for updates from imagej.public
[INFO] artifact com.github.jnr:jnr-x86asm: checking for updates from central
[INFO] Adding ignorable dependency: null:jcodings:null
[INFO] Adding ignore: org/jcodings/*
[INFO] Adding ignorable dependency: null:jnr-constants:null
[INFO] Adding ignore: com/kenai/constantine/*
[INFO] Adding ignore: jnr/constants/*
[INFO] Adding ignorable dependency: null:jnr-ffi:null
[INFO] Adding ignore: jnr/ffi/*
[INFO] Adding ignorable dependency: null:VIB-lib:null
[INFO] Adding ignore: javax/media/j3d/
[INFO] Adding ignorable dependency: null:j3d-core:null
[INFO] Adding ignore: javax/media/j3d/
[INFO] Adding ignorable dependency: null:joda-time:null
[INFO] Adding ignore: *
[INFO] Adding ignorable dependency: null:slf4j-log4j12:null
[INFO] Adding ignore: org/slf4j/impl/*
[INFO] Adding ignorable dependency: batik:batik:null
[INFO] Adding ignore: *
[INFO] Adding ignorable dependency: jama:jama:null
[INFO] Adding ignore: Jama/*
[INFO] Adding ignorable dependency: com.sun:tools:null
[INFO] Adding ignore: *
[INFO] artifact com.github.jnr:jffi: checking for updates from imagej.public
[INFO] artifact com.github.jnr:jffi: checking for updates from central
[INFO] artifact com.github.jnr:jffi: checking for updates from imagej.public
[INFO] artifact com.github.jnr:jffi: checking for updates from central
[INFO] artifact com.github.jnr:jnr-x86asm: checking for updates from imagej.public
[INFO] artifact com.github.jnr:jnr-x86asm: checking for updates from central
[INFO]
[INFO] --- buildnumber-maven-plugin:1.3:create (default) @ TrackMate_ ---
[INFO] Executing: /bin/sh -c cd /data/devel/jenkins/jobs/TrackMate/workspace && git rev-parse --verify HEAD
[INFO] Working directory: /data/devel/jenkins/jobs/TrackMate/workspace
[INFO] Storing buildNumber: 94aead7ceb19d3346002e434d2a0c4ff29d7b44b at timestamp: 1421309013812
[WARNING] Cannot get the branch information from the git repository:
Detecting the current branch failed: fatal: ref HEAD is not a symbolic ref
[INFO] Executing: /bin/sh -c cd /data/devel/jenkins/jobs/TrackMate/workspace && git rev-parse --verify HEAD
[INFO] Working directory: /data/devel/jenkins/jobs/TrackMate/workspace
[INFO] Storing buildScmBranch: UNKNOWN
[INFO]
[INFO] --- scijava-maven-plugin:0.4.3:set-rootdir (set-rootdir) @ TrackMate_ ---
[INFO] Setting rootdir: /data/devel/jenkins/jobs/TrackMate/workspace
[INFO]
[INFO] --- maven-resources-plugin:2.6:resources (default-resources) @ TrackMate_ ---
[INFO] Using 'UTF-8' encoding to copy filtered resources.
[INFO] Copying 62 resources
[INFO]
[INFO] --- maven-compiler-plugin:3.1:compile (default-compile) @ TrackMate_ ---
[INFO] Changes detected - recompiling the module!
[INFO] Compiling 290 source files to /data/devel/jenkins/jobs/TrackMate/workspace/target/classes
[WARNING] Note: Some input files use or override a deprecated API.
[WARNING] Note: Recompile with -Xlint:deprecation for details.
[INFO]
[INFO] --- maven-resources-plugin:2.6:testResources (default-testResources) @ TrackMate_ ---
[INFO] Using 'UTF-8' encoding to copy filtered resources.
[INFO] skip non existing resourceDirectory /data/devel/jenkins/jobs/TrackMate/workspace/src/test/resources
[INFO]
[INFO] --- maven-compiler-plugin:3.1:testCompile (default-testCompile) @ TrackMate_ ---
[INFO] Changes detected - recompiling the module!
[INFO] Compiling 59 source files to /data/devel/jenkins/jobs/TrackMate/workspace/target/test-classes
[WARNING] Note: Some input files use or override a deprecated API.
[WARNING] Note: Recompile with -Xlint:deprecation for details.
[INFO]
[INFO] --- maven-surefire-plugin:2.17:test (default-test) @ TrackMate_ ---
[INFO] Surefire report directory: /data/devel/jenkins/jobs/TrackMate/workspace/target/surefire-reports
-------------------------------------------------------
T E S T S
-------------------------------------------------------
Running fiji.plugin.trackmate.features.track.TrackDurationAnalyzerTest
Tests run: 4, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.211 sec - in fiji.plugin.trackmate.features.track.TrackDurationAnalyzerTest
Running fiji.plugin.trackmate.features.track.TrackLocationAnalyzerTest
Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.02 sec - in fiji.plugin.trackmate.features.track.TrackLocationAnalyzerTest
Running fiji.plugin.trackmate.features.track.TrackBranchingAnalyzerTest
[43]
Tests run: 4, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.104 sec - in fiji.plugin.trackmate.features.track.TrackBranchingAnalyzerTest
Running fiji.plugin.trackmate.features.track.TrackSpeedStatisticsAnalyzerTest
Tests run: 5, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.042 sec - in fiji.plugin.trackmate.features.track.TrackSpeedStatisticsAnalyzerTest
Running fiji.plugin.trackmate.features.track.TrackIndexAnalyzerTest
Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.006 sec - in fiji.plugin.trackmate.features.track.TrackIndexAnalyzerTest
Running fiji.plugin.trackmate.features.spot.RadiusEstimatorTest
Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.324 sec - in fiji.plugin.trackmate.features.spot.RadiusEstimatorTest
Running fiji.plugin.trackmate.features.spot.BlobDescriptiveStatisticsTest
Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.006 sec - in fiji.plugin.trackmate.features.spot.BlobDescriptiveStatisticsTest
Running fiji.plugin.trackmate.features.edge.EdgeTimeAndLocationAnalyzerTest
Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.02 sec - in fiji.plugin.trackmate.features.edge.EdgeTimeAndLocationAnalyzerTest
Running fiji.plugin.trackmate.features.edge.EdgeTargetAnalyzerTest
Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.017 sec - in fiji.plugin.trackmate.features.edge.EdgeTargetAnalyzerTest
Running fiji.plugin.trackmate.features.edge.EdgeVelocityAnalyzerTest
Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.017 sec - in fiji.plugin.trackmate.features.edge.EdgeVelocityAnalyzerTest
Running fiji.plugin.trackmate.ModelTest
Tests run: 4, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.006 sec - in fiji.plugin.trackmate.ModelTest
Running fiji.plugin.trackmate.SpotCollectionTest
Tests run: 17, Failures: 0, Errors: 1, Skipped: 0, Time elapsed: 0.357 sec <<< FAILURE! - in fiji.plugin.trackmate.SpotCollectionTest
testIsVisible(fiji.plugin.trackmate.SpotCollectionTest) Time elapsed: 0.025 sec <<< ERROR!
java.lang.NullPointerException: null
at fiji.plugin.trackmate.SpotCollectionTest.testIsVisible(SpotCollectionTest.java:156)
Running fiji.plugin.trackmate.TrackModelTest
Tests run: 6, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.003 sec - in fiji.plugin.trackmate.TrackModelTest
Running fiji.plugin.trackmate.tracking.oldlap.LAPTrackerTest
Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.067 sec - in fiji.plugin.trackmate.tracking.oldlap.LAPTrackerTest
Running fiji.plugin.trackmate.tracking.oldlap.hungarian.MunkresKuhnTest
Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 sec - in fiji.plugin.trackmate.tracking.oldlap.hungarian.MunkresKuhnTest
Running fiji.plugin.trackmate.tracking.oldlap.hungarian.JonkerVolgenantTest
Munkres-Kuhn: 129ms, Jonker-Volgenant: 86ms
Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.217 sec - in fiji.plugin.trackmate.tracking.oldlap.hungarian.JonkerVolgenantTest
Running fiji.plugin.trackmate.tracking.sparselap.linker.LAPJVTest
Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.115 sec - in fiji.plugin.trackmate.tracking.sparselap.linker.LAPJVTest
Running fiji.plugin.trackmate.tracking.sparselap.linker.SparseCostMatrixTest
Tests run: 3, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0 sec - in fiji.plugin.trackmate.tracking.sparselap.linker.SparseCostMatrixTest
Running fiji.plugin.trackmate.graph.RecursiveCumSumTest
Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.004 sec - in fiji.plugin.trackmate.graph.RecursiveCumSumTest
Running fiji.plugin.trackmate.graph.SortedDepthFirstIteratorTest
Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.027 sec - in fiji.plugin.trackmate.graph.SortedDepthFirstIteratorTest
Running fiji.plugin.trackmate.graph.ConvexBranchesDecompositionTest
Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.133 sec - in fiji.plugin.trackmate.graph.ConvexBranchesDecompositionTest
Results :
Tests in error:
SpotCollectionTest.testIsVisible:156 NullPointer
Tests run: 66, Failures: 0, Errors: 1, Skipped: 0
[INFO] ------------------------------------------------------------------------
[INFO] BUILD FAILURE
[INFO] ------------------------------------------------------------------------
[INFO] Total time: 35.526s
[INFO] Finished at: Thu Jan 15 02:03:43 CST 2015
[INFO] Final Memory: 38M/367M
[INFO] ------------------------------------------------------------------------
[ERROR] Failed to execute goal org.apache.maven.plugins:maven-surefire-plugin:2.17:test (default-test) on project TrackMate_: There are test failures.
[ERROR]
[ERROR] Please refer to /data/devel/jenkins/jobs/TrackMate/workspace/target/surefire-reports for the individual test results.
[ERROR] -> [Help 1]
[ERROR]
[ERROR] To see the full stack trace of the errors, re-run Maven with the -e switch.
[ERROR] Re-run Maven using the -X switch to enable full debug logging.
[ERROR]
[ERROR] For more information about the errors and possible solutions, please read the following articles:
[ERROR] [Help 1] http://cwiki.apache.org/confluence/display/MAVEN/MojoFailureException
Build step 'Execute shell' marked build as failure
Archiving artifacts
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