[ImageJ-builds] Build failed in Jenkins: fiji-core #457
Jenkins Daemon
jenkins at qa.nest-initiative.org
Fri Aug 10 10:27:23 CDT 2012
See <https://qa.nest-initiative.org/job/fiji-core/457/changes>
Changes:
[stephan.preibisch] Deconvolution works as chunk or in blocks, ready for CUDA
------------------------------------------
[...truncated 246 lines...]
Checking prerequisites of (fiji.build.SubFake) jars/mpicbg.jar <- jars/ij.jar jars/...
Checking prerequisites of (fiji.build.SubFake) jars/Jama.jar <- src-plugins/Jama/
Parsing src-plugins/Jama/pom.xml
Checking prerequisites of (fiji.build.SubFake) plugins/CorrectBleach_.jar <- src-pl...
Building (fiji.build.SubFake) plugins/CorrectBleach_.jar <- src-pl...
Parsing src-plugins/CorrectBleach_/pom.xml
Compiling 8 files in <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/CorrectBleach_>
[-source, 1.5, -target, 1.5, -classpath, <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/CorrectBleach_/target/classes>:/home/jenkins/.m2/repository/com/apple/AppleJavaExtensions/1.5/AppleJavaExtensions-1.5.jar:/home/jenkins/.m2/repository/net/imagej/ij/1.46r/ij-1.46r.jar:<https://qa.nest-initiative.org/job/fiji-core/ws/java/linux/jdk1.6.0_24/jre/../lib/tools.jar,> -d, <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/CorrectBleach_/target/classes,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/CorrectBleach_/src/main/java/histogram2/PiecewiseLinearCdf.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/CorrectBleach_/src/main/java/histogram2/HistogramPlot.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/CorrectBleach_/src/main/java/histogram2/HistogramMatcher.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/CorrectBleach_/src/main/java/histogram2/Util.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/CorrectBleach_/src/main/java/emblcmci/BleachCorrection_ExpoFit.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/CorrectBleach_/src/main/java/emblcmci/BleachCorrection.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/CorrectBleach_/src/main/java/emblcmci/BleachCorrection_MH.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/CorrectBleach_/src/main/java/emblcmci/BleachCorrection_SimpleRatio.java]>
using the class path: <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/CorrectBleach_/target/classes>:/home/jenkins/.m2/repository/com/apple/AppleJavaExtensions/1.5/AppleJavaExtensions-1.5.jar:/home/jenkins/.m2/repository/net/imagej/ij/1.46r/ij-1.46r.jar:<https://qa.nest-initiative.org/job/fiji-core/ws/java/linux/jdk1.6.0_24/jre/../lib/tools.jar>
Checking prerequisites of (fiji.build.SubFake) plugins/Graph_Cut.jar <- src-plugins...
Building (fiji.build.SubFake) plugins/Graph_Cut.jar <- src-plugins...
Parsing src-plugins/Graph_Cut/pom.xml
Parsing /home/jenkins/.m2/repository/mpicbg/imglib-ij/2.0.0-SNAPSHOT/imglib-ij-2.0.0-20120703.224255-404.pom
Parsing /home/jenkins/.m2/repository/mpicbg/pom-imglib1/2.0.0-SNAPSHOT/pom-imglib1-2.0.0-20120703.224255-404.pom
Parsing /home/jenkins/.m2/repository/net/imglib2/pom-imglib/2.0.0-SNAPSHOT/pom-imglib-2.0.0-20120703.224255-404.pom
Parsing /home/jenkins/.m2/repository/mpicbg/imglib/2.0.0-SNAPSHOT/imglib-2.0.0-20120703.224255-404.pom
Parsing /home/jenkins/.m2/repository/mpicbg/imglib-algorithms/2.0.0-SNAPSHOT/imglib-algorithms-2.0.0-20120703.224255-404.pom
Parsing /home/jenkins/.m2/repository/edu/mines/mines-jtk/20100113/mines-jtk-20100113.pom
Parsing /home/jenkins/.m2/repository/jama/jama/1.0.2/jama-1.0.2.pom
Compiling 4 files in <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/Graph_Cut>
[-source, 1.5, -target, 1.5, -classpath, <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/Graph_Cut/target/classes>:/home/jenkins/.m2/repository/com/apple/AppleJavaExtensions/1.5/AppleJavaExtensions-1.5.jar:<https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/fiji-lib/target/fiji-lib-2.0.0-SNAPSHOT.jar>:/home/jenkins/.m2/repository/net/imagej/ij/1.46r/ij-1.46r.jar:/home/jenkins/.m2/repository/mpicbg/imglib/2.0.0-SNAPSHOT/imglib-2.0.0-20120703.224255-404.jar:/home/jenkins/.m2/repository/mpicbg/imglib-algorithms/2.0.0-SNAPSHOT/imglib-algorithms-2.0.0-20120703.224255-404.jar:/home/jenkins/.m2/repository/mpicbg/imglib-ij/2.0.0-SNAPSHOT/imglib-ij-2.0.0-20120703.224255-404.jar:/home/jenkins/.m2/repository/jama/jama/1.0.2/jama-1.0.2.jar:/home/jenkins/.m2/repository/edu/mines/mines-jtk/20100113/mines-jtk-20100113.jar:/home/jenkins/.m2/repository/mpicbg/mpicbg/20120621/mpicbg-20120621.jar:<https://qa.nest-initiative.org/job/fiji-core/ws/java/linux/jdk1.6.0_24/jre/../lib/tools.jar,> -d, <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/Graph_Cut/target/classes,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/Graph_Cut/src/main/java/graphcut/Graph_Cut.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/Graph_Cut/src/main/java/graphcut/Graph.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/Graph_Cut/src/main/java/graphcut/ImageOverlay.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/Graph_Cut/src/main/java/graphcut/GraphCut.java]>
using the class path: <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/Graph_Cut/target/classes>:/home/jenkins/.m2/repository/com/apple/AppleJavaExtensions/1.5/AppleJavaExtensions-1.5.jar:<https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/fiji-lib/target/fiji-lib-2.0.0-SNAPSHOT.jar>:/home/jenkins/.m2/repository/net/imagej/ij/1.46r/ij-1.46r.jar:/home/jenkins/.m2/repository/mpicbg/imglib/2.0.0-SNAPSHOT/imglib-2.0.0-20120703.224255-404.jar:/home/jenkins/.m2/repository/mpicbg/imglib-algorithms/2.0.0-SNAPSHOT/imglib-algorithms-2.0.0-20120703.224255-404.jar:/home/jenkins/.m2/repository/mpicbg/imglib-ij/2.0.0-SNAPSHOT/imglib-ij-2.0.0-20120703.224255-404.jar:/home/jenkins/.m2/repository/jama/jama/1.0.2/jama-1.0.2.jar:/home/jenkins/.m2/repository/edu/mines/mines-jtk/20100113/mines-jtk-20100113.jar:/home/jenkins/.m2/repository/mpicbg/mpicbg/20120621/mpicbg-20120621.jar:<https://qa.nest-initiative.org/job/fiji-core/ws/java/linux/jdk1.6.0_24/jre/../lib/tools.jar>
Checking prerequisites of (fiji.build.SubFake) plugins/Descriptor_based_registratio...
Building (fiji.build.SubFake) plugins/Descriptor_based_registratio...
Parsing src-plugins/Descriptor_based_registration/pom.xml
Parsing /home/jenkins/.m2/repository/junit/junit/4.5/junit-4.5.pom
Parsing /home/jenkins/.m2/repository/com/jcraft/jzlib/1.0.7/jzlib-1.0.7.pom
Parsing /home/jenkins/.m2/repository/mpicbg/imglib-io/2.0.0-SNAPSHOT/imglib-io-2.0.0-20120703.224255-404.pom
Parsing /home/jenkins/.m2/repository/loci/loci-common/4.4-SNAPSHOT/loci-common-4.4-20120806.234217-149.pom
Parsing /home/jenkins/.m2/repository/loci/pom-scifio/4.4-SNAPSHOT/pom-scifio-4.4-20120628.152121-51.pom
Parsing /home/jenkins/.m2/repository/org/slf4j/slf4j-api/1.5.10/slf4j-api-1.5.10.pom
Parsing /home/jenkins/.m2/repository/org/slf4j/slf4j-parent/1.5.10/slf4j-parent-1.5.10.pom
Parsing /home/jenkins/.m2/repository/log4j/log4j/1.2.14/log4j-1.2.14.pom
Parsing /home/jenkins/.m2/repository/org/slf4j/slf4j-log4j12/1.5.10/slf4j-log4j12-1.5.10.pom
Parsing /home/jenkins/.m2/repository/loci/ome-xml/4.4-SNAPSHOT/ome-xml-4.4-20120806.234242-149.pom
Parsing /home/jenkins/.m2/repository/loci/scifio/4.4-SNAPSHOT/scifio-4.4-20120806.234301-106.pom
Parsing /home/jenkins/.m2/repository/loci/jai_imageio/4.4-SNAPSHOT/jai_imageio-4.4-20120628.152145-132.pom
Parsing /home/jenkins/.m2/repository/com/sun/clibwrapper_jiio/1.1/clibwrapper_jiio-1.1.pom
Parsing /home/jenkins/.m2/repository/loci/lwf-stubs/4.4-SNAPSHOT/lwf-stubs-4.4-20120628.152236-132.pom
Parsing /home/jenkins/.m2/repository/com/jgoodies/forms/1.2.1/forms-1.2.1.pom
Parsing /home/jenkins/.m2/repository/xalan/serializer/2.7.1/serializer-2.7.1.pom
Parsing /home/jenkins/.m2/repository/org/apache/apache/4/apache-4.pom
Parsing /home/jenkins/.m2/repository/xml-apis/xml-apis/1.3.04/xml-apis-1.3.04.pom
Parsing /home/jenkins/.m2/repository/xalan/xalan/2.7.1/xalan-2.7.1.pom
Parsing /home/jenkins/.m2/repository/java3d/j3d-core/1.5.2/j3d-core-1.5.2.pom
Parsing /home/jenkins/.m2/repository/java3d/j3d-core-utils/1.5.2/j3d-core-utils-1.5.2.pom
Parsing /home/jenkins/.m2/repository/java3d/vecmath/1.5.2/vecmath-1.5.2.pom
Parsing /home/jenkins/.m2/repository/com/jcraft/jsch/0.1.42/jsch-0.1.42.pom
Parsing /home/jenkins/.m2/repository/jfree/jcommon/1.0.15/jcommon-1.0.15.pom
Parsing /home/jenkins/.m2/repository/jfree/jfreechart/1.0.13/jfreechart-1.0.13.pom
Parsing /home/jenkins/.m2/repository/jfree/jcommon/1.0.16/jcommon-1.0.16.pom
Parsing /home/jenkins/.m2/repository/org/sonatype/oss/oss-parent/7/oss-parent-7.pom
Parsing /home/jenkins/.m2/repository/nz/ac/waikato/cms/weka/weka-dev/3.7.6/weka-dev-3.7.6.pom
Parsing /home/jenkins/.m2/repository/net/sf/squirrel-sql/thirdparty-non-maven/java-cup/0.11a/java-cup-0.11a.pom
Parsing /home/jenkins/.m2/repository/org/pentaho/pentaho-commons/pentaho-package-manager/1.0.0/pentaho-package-manager-1.0.0.pom
Trying to download http://dev.loci.wisc.edu/maven2/releases/loci/scifio/4.4-SNAPSHOT/maven-metadata.xml.sha1
java.io.FileNotFoundException: http://dev.loci.wisc.edu/maven2/releases/loci/scifio/4.4-SNAPSHOT/maven-metadata.xml.sha1
at sun.net.www.protocol.http.HttpURLConnection.getInputStream(HttpURLConnection.java:1434)
at java.net.URL.openStream(URL.java:1010)
at fiji.build.minimaven.BuildEnvironment.download(BuildEnvironment.java:404)
at fiji.build.minimaven.BuildEnvironment.downloadAndVerify(BuildEnvironment.java:301)
at fiji.build.minimaven.BuildEnvironment.downloadAndVerify(BuildEnvironment.java:259)
at fiji.build.minimaven.POM.download(POM.java:104)
at fiji.build.minimaven.POM.maybeDownloadAutomatically(POM.java:639)
at fiji.build.minimaven.POM.getDependencies(POM.java:409)
at fiji.build.minimaven.POM.getDependencies(POM.java:418)
at fiji.build.minimaven.POM.getDependencies(POM.java:384)
at fiji.build.minimaven.POM.downloadDependencies(POM.java:92)
at fiji.build.SubFake.action(SubFake.java:183)
at fiji.build.Rule.make(Rule.java:195)
at fiji.build.Rule.make(Rule.java:175)
at fiji.build.Rule.makePrerequisites(Rule.java:333)
at fiji.build.Rule.make(Rule.java:189)
at fiji.build.Rule.make(Rule.java:175)
at fiji.build.Fake.make(Fake.java:242)
at fiji.build.Fake.main(Fake.java:56)
Trying to download http://dev.loci.wisc.edu/maven2/snapshots/loci/scifio/4.4-SNAPSHOT/maven-metadata.xml.sha1
Trying to download http://dev.loci.wisc.edu/maven2/snapshots/loci/scifio/4.4-SNAPSHOT/maven-metadata.xml
Checking for new snapshot of scifio
Trying to download http://dev.loci.wisc.edu/maven2/snapshots/loci/scifio/4.4-SNAPSHOT/scifio-4.4-20120810.090320-107.pom.sha1
Trying to download http://dev.loci.wisc.edu/maven2/snapshots/loci/scifio/4.4-SNAPSHOT/scifio-4.4-20120810.090320-107.pom
Trying to download http://dev.loci.wisc.edu/maven2/snapshots/loci/scifio/4.4-SNAPSHOT/scifio-4.4-20120810.090320-107.jar.sha1
Trying to download http://dev.loci.wisc.edu/maven2/snapshots/loci/scifio/4.4-SNAPSHOT/scifio-4.4-20120810.090320-107.jar
Downloading scifio
Trying to download http://dev.loci.wisc.edu/maven2/releases/loci/loci-common/4.4-SNAPSHOT/maven-metadata.xml.sha1
java.io.FileNotFoundException: http://dev.loci.wisc.edu/maven2/releases/loci/loci-common/4.4-SNAPSHOT/maven-metadata.xml.sha1
at sun.net.www.protocol.http.HttpURLConnection.getInputStream(HttpURLConnection.java:1434)
at java.net.URL.openStream(URL.java:1010)
at fiji.build.minimaven.BuildEnvironment.download(BuildEnvironment.java:404)
at fiji.build.minimaven.BuildEnvironment.downloadAndVerify(BuildEnvironment.java:301)
at fiji.build.minimaven.BuildEnvironment.downloadAndVerify(BuildEnvironment.java:259)
at fiji.build.minimaven.POM.download(POM.java:104)
at fiji.build.minimaven.POM.maybeDownloadAutomatically(POM.java:639)
at fiji.build.minimaven.POM.getDependencies(POM.java:409)
at fiji.build.minimaven.POM.getDependencies(POM.java:418)
at fiji.build.minimaven.POM.getDependencies(POM.java:384)
at fiji.build.minimaven.POM.downloadDependencies(POM.java:92)
at fiji.build.SubFake.action(SubFake.java:183)
at fiji.build.Rule.make(Rule.java:195)
at fiji.build.Rule.make(Rule.java:175)
at fiji.build.Rule.makePrerequisites(Rule.java:333)
at fiji.build.Rule.make(Rule.java:189)
at fiji.build.Rule.make(Rule.java:175)
at fiji.build.Fake.make(Fake.java:242)
at fiji.build.Fake.main(Fake.java:56)
Trying to download http://dev.loci.wisc.edu/maven2/snapshots/loci/loci-common/4.4-SNAPSHOT/maven-metadata.xml.sha1
Trying to download http://dev.loci.wisc.edu/maven2/snapshots/loci/loci-common/4.4-SNAPSHOT/maven-metadata.xml
Checking for new snapshot of loci-common
Trying to download http://dev.loci.wisc.edu/maven2/snapshots/loci/loci-common/4.4-SNAPSHOT/loci-common-4.4-20120810.090234-150.pom.sha1
Trying to download http://dev.loci.wisc.edu/maven2/snapshots/loci/loci-common/4.4-SNAPSHOT/loci-common-4.4-20120810.090234-150.pom
Trying to download http://dev.loci.wisc.edu/maven2/snapshots/loci/loci-common/4.4-SNAPSHOT/loci-common-4.4-20120810.090234-150.jar.sha1
Trying to download http://dev.loci.wisc.edu/maven2/snapshots/loci/loci-common/4.4-SNAPSHOT/loci-common-4.4-20120810.090234-150.jar
Downloading loci-common
Parsing /home/jenkins/.m2/repository/loci/loci_plugins/4.4-SNAPSHOT/loci_plugins-4.4-20120806.234352-138.pom
Trying to download http://dev.loci.wisc.edu/maven2/releases/loci/loci_plugins/4.4-SNAPSHOT/maven-metadata.xml.sha1
java.io.FileNotFoundException: http://dev.loci.wisc.edu/maven2/releases/loci/loci_plugins/4.4-SNAPSHOT/maven-metadata.xml.sha1
at sun.net.www.protocol.http.HttpURLConnection.getInputStream(HttpURLConnection.java:1434)
at java.net.URL.openStream(URL.java:1010)
at fiji.build.minimaven.BuildEnvironment.download(BuildEnvironment.java:404)
at fiji.build.minimaven.BuildEnvironment.downloadAndVerify(BuildEnvironment.java:301)
at fiji.build.minimaven.BuildEnvironment.downloadAndVerify(BuildEnvironment.java:259)
at fiji.build.minimaven.POM.download(POM.java:104)
at fiji.build.minimaven.POM.maybeDownloadAutomatically(POM.java:639)
at fiji.build.minimaven.POM.getDependencies(POM.java:409)
at fiji.build.minimaven.POM.getDependencies(POM.java:418)
at fiji.build.minimaven.POM.getDependencies(POM.java:384)
at fiji.build.minimaven.POM.downloadDependencies(POM.java:92)
at fiji.build.SubFake.action(SubFake.java:183)
at fiji.build.Rule.make(Rule.java:195)
at fiji.build.Rule.make(Rule.java:175)
at fiji.build.Rule.makePrerequisites(Rule.java:333)
at fiji.build.Rule.make(Rule.java:189)
at fiji.build.Rule.make(Rule.java:175)
at fiji.build.Fake.make(Fake.java:242)
at fiji.build.Fake.main(Fake.java:56)
Trying to download http://dev.loci.wisc.edu/maven2/snapshots/loci/loci_plugins/4.4-SNAPSHOT/maven-metadata.xml.sha1
Trying to download http://dev.loci.wisc.edu/maven2/snapshots/loci/loci_plugins/4.4-SNAPSHOT/maven-metadata.xml
Checking for new snapshot of loci_plugins
Trying to download http://dev.loci.wisc.edu/maven2/snapshots/loci/loci_plugins/4.4-SNAPSHOT/loci_plugins-4.4-20120810.090417-139.pom.sha1
Trying to download http://dev.loci.wisc.edu/maven2/snapshots/loci/loci_plugins/4.4-SNAPSHOT/loci_plugins-4.4-20120810.090417-139.pom
Trying to download http://dev.loci.wisc.edu/maven2/snapshots/loci/loci_plugins/4.4-SNAPSHOT/loci_plugins-4.4-20120810.090417-139.jar.sha1
Trying to download http://dev.loci.wisc.edu/maven2/snapshots/loci/loci_plugins/4.4-SNAPSHOT/loci_plugins-4.4-20120810.090417-139.jar
Downloading loci_plugins
Parsing /home/jenkins/.m2/repository/loci/bio-formats/4.4-SNAPSHOT/bio-formats-4.4-20120628.152312-122.pom
Parsing /home/jenkins/.m2/repository/loci/mdbtools-java/4.4-SNAPSHOT/mdbtools-java-4.4-20120628.152154-132.pom
Parsing /home/jenkins/.m2/repository/loci/metakit/4.4-SNAPSHOT/metakit-4.4-20120628.152303-132.pom
Parsing /home/jenkins/.m2/repository/loci/poi-loci/4.4-SNAPSHOT/poi-loci-4.4-20120628.152218-132.pom
Parsing /home/jenkins/.m2/repository/commons-logging/commons-logging/1.1.1/commons-logging-1.1.1.pom
Parsing /home/jenkins/.m2/repository/org/apache/commons/commons-parent/5/commons-parent-5.pom
Parsing /home/jenkins/.m2/repository/essi-unidata/netcdf-java/4.0.41/netcdf-java-4.0.41.pom
Trying to download http://dev.loci.wisc.edu/maven2/releases/loci/ome-xml/4.4-SNAPSHOT/maven-metadata.xml.sha1
java.io.FileNotFoundException: http://dev.loci.wisc.edu/maven2/releases/loci/ome-xml/4.4-SNAPSHOT/maven-metadata.xml.sha1
at sun.net.www.protocol.http.HttpURLConnection.getInputStream(HttpURLConnection.java:1434)
at java.net.URL.openStream(URL.java:1010)
at fiji.build.minimaven.BuildEnvironment.download(BuildEnvironment.java:404)
at fiji.build.minimaven.BuildEnvironment.downloadAndVerify(BuildEnvironment.java:301)
at fiji.build.minimaven.BuildEnvironment.downloadAndVerify(BuildEnvironment.java:259)
at fiji.build.minimaven.POM.download(POM.java:104)
at fiji.build.minimaven.POM.maybeDownloadAutomatically(POM.java:639)
at fiji.build.minimaven.POM.getDependencies(POM.java:409)
at fiji.build.minimaven.POM.getDependencies(POM.java:418)
at fiji.build.minimaven.POM.getDependencies(POM.java:384)
at fiji.build.minimaven.POM.downloadDependencies(POM.java:92)
at fiji.build.SubFake.action(SubFake.java:183)
at fiji.build.Rule.make(Rule.java:195)
at fiji.build.Rule.make(Rule.java:175)
at fiji.build.Rule.makePrerequisites(Rule.java:333)
at fiji.build.Rule.make(Rule.java:189)
at fiji.build.Rule.make(Rule.java:175)
at fiji.build.Fake.make(Fake.java:242)
at fiji.build.Fake.main(Fake.java:56)
Trying to download http://dev.loci.wisc.edu/maven2/snapshots/loci/ome-xml/4.4-SNAPSHOT/maven-metadata.xml.sha1
Trying to download http://dev.loci.wisc.edu/maven2/snapshots/loci/ome-xml/4.4-SNAPSHOT/maven-metadata.xml
Checking for new snapshot of ome-xml
Trying to download http://dev.loci.wisc.edu/maven2/snapshots/loci/ome-xml/4.4-SNAPSHOT/ome-xml-4.4-20120810.090301-150.pom.sha1
Trying to download http://dev.loci.wisc.edu/maven2/snapshots/loci/ome-xml/4.4-SNAPSHOT/ome-xml-4.4-20120810.090301-150.pom
Trying to download http://dev.loci.wisc.edu/maven2/snapshots/loci/ome-xml/4.4-SNAPSHOT/ome-xml-4.4-20120810.090301-150.jar.sha1
Trying to download http://dev.loci.wisc.edu/maven2/snapshots/loci/ome-xml/4.4-SNAPSHOT/ome-xml-4.4-20120810.090301-150.jar
Downloading ome-xml
Compiling 22 files in <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/pal-optimization>
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using the class path: <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/pal-optimization/target/classes>
Compiling 190 files in <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/VIB-lib>
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Note: Some input files use or override a deprecated API.
Note: Recompile with -Xlint:deprecation for details.
Note: Some input files use unchecked or unsafe operations.
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Compiling 121 files in <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/3D_Viewer>
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using the class path: <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/3D_Viewer/target/classes>:/home/jenkins/.m2/repository/com/apple/AppleJavaExtensions/1.5/AppleJavaExtensions-1.5.jar:<https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/Jama/target/Jama-1.0.2.jar>:<https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/VIB-lib/target/VIB-lib-2.0.0-SNAPSHOT.jar>:<https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/fiji-lib/target/fiji-lib-2.0.0-SNAPSHOT.jar>:/home/jenkins/.m2/repository/net/imagej/ij/1.46r/ij-1.46r.jar:/home/jenkins/.m2/repository/mpicbg/imglib/2.0.0-SNAPSHOT/imglib-2.0.0-20120703.224255-404.jar:/home/jenkins/.m2/repository/java3d/j3d-core/1.5.2/j3d-core-1.5.2.jar:/home/jenkins/.m2/repository/java3d/j3d-core-utils/1.5.2/j3d-core-utils-1.5.2.jar:/home/jenkins/.m2/repository/junit/junit/4.5/junit-4.5.jar:/home/jenkins/.m2/repository/com/jcraft/jzlib/1.0.7/jzlib-1.0.7.jar:<https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/pal-optimization/target/pal-optimization-2.0.0-SNAPSHOT.jar>:<https://qa.nest-initiative.org/job/fiji-core/ws/java/linux/jdk1.6.0_24/jre/../lib/tools.jar>:/home/jenkins/.m2/repository/java3d/vecmath/1.5.2/vecmath-1.5.2.jar
Note: Some input files use or override a deprecated API.
Note: Recompile with -Xlint:deprecation for details.
Note: Some input files use unchecked or unsafe operations.
Note: Recompile with -Xlint:unchecked for details.
Compiling 32 files in <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/Fiji_Plugins>
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using the class path: <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/Fiji_Plugins/target/classes>:/home/jenkins/.m2/repository/com/apple/AppleJavaExtensions/1.5/AppleJavaExtensions-1.5.jar:<https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/Jama/target/Jama-1.0.2.jar>:<https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/VIB-lib/target/VIB-lib-2.0.0-SNAPSHOT.jar>:<https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/fiji-lib/target/fiji-lib-2.0.0-SNAPSHOT.jar>:/home/jenkins/.m2/repository/net/imagej/ij/1.46r/ij-1.46r.jar:/home/jenkins/.m2/repository/com/jcraft/jsch/0.1.42/jsch-0.1.42.jar:/home/jenkins/.m2/repository/junit/junit/4.5/junit-4.5.jar:/home/jenkins/.m2/repository/com/jcraft/jzlib/1.0.7/jzlib-1.0.7.jar:<https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/pal-optimization/target/pal-optimization-2.0.0-SNAPSHOT.jar>:<https://qa.nest-initiative.org/job/fiji-core/ws/java/linux/jdk1.6.0_24/jre/../lib/tools.jar>
Note: <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/Fiji_Plugins/src/main/java/Retinex_.java> uses or overrides a deprecated API.
Note: Recompile with -Xlint:deprecation for details.
Note: Some input files use unchecked or unsafe operations.
Note: Recompile with -Xlint:unchecked for details.
Compiling 16 files in <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Opener>
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using the class path: <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Opener/target/classes>:/home/jenkins/.m2/repository/com/apple/AppleJavaExtensions/1.5/AppleJavaExtensions-1.5.jar:<https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/fiji-lib/target/fiji-lib-2.0.0-SNAPSHOT.jar>:/home/jenkins/.m2/repository/net/imagej/ij/1.46r/ij-1.46r.jar:<https://qa.nest-initiative.org/job/fiji-core/ws/java/linux/jdk1.6.0_24/jre/../lib/tools.jar>
Note: <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Opener/src/main/java/spimopener/GaussianStackFocuser.java> uses or overrides a deprecated API.
Note: Recompile with -Xlint:deprecation for details.
Compiling 143 files in <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration>
[-source, 1.5, -target, 1.5, -classpath, 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<https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/mpicbg/spim/postprocessing/deconvolution2/LRFFT.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/mpicbg/spim/postprocessing/deconvolution2/AdjustInput.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/mpicbg/spim/ClusterReconstruction.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/mpicbg/spim/segmentation/InteractiveDoG.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/mpicbg/spim/mpicbg/PointMatchGeneric.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/mpicbg/spim/mpicbg/Java3d.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/mpicbg/spim/mpicbg/TileConfigurationPhaseCorrelation.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/mpicbg/spim/mpicbg/TileConfigurationSPIM.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/mpicbg/spim/mpicbg/TileSPIM.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/mpicbg/spim/mpicbg/SketchTikZFileObject.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/mpicbg/spim/io/XMLFunctions.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/mpicbg/spim/io/ConfigurationParserSPIM.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/mpicbg/spim/io/IOFunctions.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/mpicbg/spim/io/TextFileAccess.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/mpicbg/spim/io/ConfigurationParserGeneral.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/mpicbg/spim/io/ProgramConfiguration.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/mpicbg/spim/io/ConfigurationParserException.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/mpicbg/spim/io/ConfigurationParserObject.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/mpicbg/spim/io/SPIMConfiguration.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/mpicbg/spim/io/ParsePattern.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/mpicbg/spim/io/ImgLibSaver.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/mpicbg/spim/vib/math3d/JacobiDouble.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/mpicbg/spim/vib/math3d/Line.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/mpicbg/spim/vib/math3d/Plane.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/mpicbg/spim/vib/math3d/Triangle.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/mpicbg/spim/vib/math3d/Point3d.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/mpicbg/spim/vib/math3d/FastMatrixN.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/mpicbg/spim/vib/FastMatrix.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/mpicbg/spim/preprocessing/AutomaticAngleSetup.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/mpicbg/spim/Reconstruction.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/mpicbg/spim/vis3d/VisualizationSketchTikZ.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/mpicbg/spim/vis3d/Motion3D.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/mpicbg/spim/vis3d/VisualizeBeads.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/mpicbg/spim/vis3d/PreviewRegistration.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/mpicbg/spim/vis3d/VisualizationFunctions.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/mpicbg/spim/vis3d/Viewer3dFunctions.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/mpicbg/spim/vis3d/BeadTransformGroup.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/mpicbg/spim/simulation/SimulateBeadImage.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/mpicbg/util/TransformUtils.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/SPIM_Registration.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/fiji/plugin/Multi_View_Fusion.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/fiji/plugin/Multi_View_Deconvolution.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/fiji/plugin/Apply_External_Transformation.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/fiji/plugin/timelapsedisplay/TimeLapseDisplay.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/fiji/plugin/timelapsedisplay/RegistrationStatistics.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/fiji/plugin/timelapsedisplay/GraphFrame.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/fiji/plugin/timelapsedisplay/MouseListenerTimelapse.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/fiji/plugin/timelapsedisplay/FileOpenMenuEntry.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/fiji/plugin/Bead_Registration.java,> <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/fiji/plugin/Regtest.java]>
using the class path: <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/target/classes>:<https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/3D_Viewer/target/3D_Viewer-2.0.0-SNAPSHOT.jar>:/home/jenkins/.m2/repository/com/apple/AppleJavaExtensions/1.5/AppleJavaExtensions-1.5.jar:<https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/Fiji_Plugins/target/Fiji_Plugins-2.0.0-SNAPSHOT.jar>:<https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/Jama/target/Jama-1.0.2.jar>:<https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Opener/target/SPIM_Opener-2.0.0-SNAPSHOT.jar>:<https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/VIB-lib/target/VIB-lib-2.0.0-SNAPSHOT.jar>:/home/jenkins/.m2/repository/com/sun/clibwrapper_jiio/1.1/clibwrapper_jiio-1.1.jar:<https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/fiji-lib/target/fiji-lib-2.0.0-SNAPSHOT.jar>:/home/jenkins/.m2/repository/com/jgoodies/forms/1.2.1/forms-1.2.1.jar:/home/jenkins/.m2/repository/net/imagej/ij/1.46r/ij-1.46r.jar:/home/jenkins/.m2/repository/mpicbg/imglib/2.0.0-SNAPSHOT/imglib-2.0.0-20120703.224255-404.jar:/home/jenkins/.m2/repository/mpicbg/imglib-algorithms/2.0.0-SNAPSHOT/imglib-algorithms-2.0.0-20120703.224255-404.jar:/home/jenkins/.m2/repository/mpicbg/imglib-ij/2.0.0-SNAPSHOT/imglib-ij-2.0.0-20120703.224255-404.jar:/home/jenkins/.m2/repository/mpicbg/imglib-io/2.0.0-SNAPSHOT/imglib-io-2.0.0-20120703.224255-404.jar:/home/jenkins/.m2/repository/java3d/j3d-core/1.5.2/j3d-core-1.5.2.jar:/home/jenkins/.m2/repository/java3d/j3d-core-utils/1.5.2/j3d-core-utils-1.5.2.jar:/home/jenkins/.m2/repository/loci/jai_imageio/4.4-SNAPSHOT/jai_imageio-4.4-20120628.152145-132.jar:/home/jenkins/.m2/repository/jama/jama/1.0.2/jama-1.0.2.jar:/home/jenkins/.m2/repository/net/sf/squirrel-sql/thirdparty-non-maven/java-cup/0.11a/java-cup-0.11a.jar:/home/jenkins/.m2/repository/jfree/jcommon/1.0.15/jcommon-1.0.15.jar:/home/jenkins/.m2/repository/jfree/jcommon/1.0.16/jcommon-1.0.16.jar:/home/jenkins/.m2/repository/jfree/jfreechart/1.0.13/jfreechart-1.0.13.jar:/home/jenkins/.m2/repository/com/jcraft/jsch/0.1.42/jsch-0.1.42.jar:/home/jenkins/.m2/repository/junit/junit/4.5/junit-4.5.jar:/home/jenkins/.m2/repository/com/jcraft/jzlib/1.0.7/jzlib-1.0.7.jar:/home/jenkins/.m2/repository/loci/loci-common/4.4-SNAPSHOT/loci-common-4.4-20120806.234217-149.jar:/home/jenkins/.m2/repository/loci/lwf-stubs/4.4-SNAPSHOT/lwf-stubs-4.4-20120628.152236-132.jar:/home/jenkins/.m2/repository/edu/mines/mines-jtk/20100113/mines-jtk-20100113.jar:/home/jenkins/.m2/repository/mpicbg/mpicbg/20120621/mpicbg-20120621.jar:/home/jenkins/.m2/repository/loci/ome-xml/4.4-SNAPSHOT/ome-xml-4.4-20120806.234242-149.jar:<https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/pal-optimization/target/pal-optimization-2.0.0-SNAPSHOT.jar>:/home/jenkins/.m2/repository/org/pentaho/pentaho-commons/pentaho-package-manager/1.0.0/pentaho-package-manager-1.0.0.jar:/home/jenkins/.m2/repository/loci/scifio/4.4-SNAPSHOT/scifio-4.4-20120806.234301-106.jar:/home/jenkins/.m2/repository/org/slf4j/slf4j-api/1.5.10/slf4j-api-1.5.10.jar:<https://qa.nest-initiative.org/job/fiji-core/ws/java/linux/jdk1.6.0_24/jre/../lib/tools.jar>:/home/jenkins/.m2/repository/java3d/vecmath/1.5.2/vecmath-1.5.2.jar:/home/jenkins/.m2/repository/nz/ac/waikato/cms/weka/weka-dev/3.7.6/weka-dev-3.7.6.jar
<https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/mpicbg/spim/postprocessing/deconvolution2/LRFFT.java>:126: cannot find symbol
symbol : method setExtendImageByKernelSize(boolean)
location: class mpicbg.imglib.algorithm.fft.FourierConvolution<mpicbg.imglib.type.numeric.real.FloatType,mpicbg.imglib.type.numeric.real.FloatType>
this.fftConvolution1.setExtendImageByKernelSize( false );
^
<https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/mpicbg/spim/postprocessing/deconvolution2/LRFFT.java>:131: cannot find symbol
symbol : method setExtendImageByKernelSize(boolean)
location: class mpicbg.imglib.algorithm.fft.FourierConvolution<mpicbg.imglib.type.numeric.real.FloatType,mpicbg.imglib.type.numeric.real.FloatType>
this.fftConvolution2.setExtendImageByKernelSize( false );
^
<https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SPIM_Registration/src/main/java/mpicbg/spim/postprocessing/deconvolution2/Block.java>:314: cannot find symbol
symbol : method setExtendImageByKernelSize(boolean)
location: class mpicbg.imglib.algorithm.fft.FourierConvolution<mpicbg.imglib.type.numeric.real.FloatType,mpicbg.imglib.type.numeric.real.FloatType>
t2.setExtendImageByKernelSize( false );
^
Note: Some input files use or override a deprecated API.
Note: Recompile with -Xlint:deprecation for details.
Note: Some input files use unchecked or unsafe operations.
Note: Recompile with -Xlint:unchecked for details.
3 errors
fiji.build.minimaven.JavaCompiler$CompileError: Compile error: 1
at fiji.build.minimaven.JavaCompiler.call(JavaCompiler.java:37)
at fiji.build.minimaven.POM.build(POM.java:223)
at fiji.build.minimaven.POM.build(POM.java:177)
at fiji.build.minimaven.POM.buildJar(POM.java:164)
at fiji.build.SubFake.action(SubFake.java:184)
at fiji.build.Rule.make(Rule.java:195)
at fiji.build.Rule.make(Rule.java:175)
at fiji.build.Rule.makePrerequisites(Rule.java:333)
at fiji.build.Rule.make(Rule.java:189)
at fiji.build.Rule.make(Rule.java:175)
at fiji.build.Fake.make(Fake.java:242)
at fiji.build.Fake.main(Fake.java:56)
Compile error: 1
in rule (fiji.build.SubFake) plugins/Descriptor_based_registratio...
in rule (fiji.build.All) all <- ImageJ fiji jars/VectorString.jar...
Build step 'Execute shell' marked build as failure
Archiving artifacts
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