[ImageJ-builds] Build failed in Jenkins: fiji-full #518
Jenkins Daemon
jenkins at qa.nest-initiative.org
Fri Oct 26 03:09:25 CDT 2012
See <https://qa.nest-initiative.org/job/fiji-full/518/changes>
Changes:
[cmbruns] Initial version of Vaa3D reader.
[cmbruns] Corrected PBD16 reader for annoying java signed behavior. Unsigned shift operator is not enough.
[cmbruns] Turned off explicit Vaa3D reader plugin menu
[cmbruns] Modify the plugin "Vaa3d Reader"
[cmbruns] Modify the plugin "Vaa3d Reader"
[cmbruns] Add status messages to Vaa3d_Reader plugin
[cmbruns] Wrap Vaa3d HandleExtraFileTypes stanza in try{} for extra safety.
[johannes.schindelin] Adjust the plugins.config for Vaa3D reader
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VIB_ not up-to-date because 117 source files are not up-to-date 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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 57 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Simple_Neurite_Tracer>
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<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Simple_Neurite_Tracer/src/main/java/tracing/AutoSearchThread.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Simple_Neurite_Tracer/src/main/java/tracing/TubularGeodesicsTracer.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Simple_Neurite_Tracer/src/main/java/tracing/NormalPlaneCanvas.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Simple_Neurite_Tracer/src/main/java/tracing/SearchInterface.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Simple_Neurite_Tracer/src/main/java/tracing/PathTransformer.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Simple_Neurite_Tracer/src/main/java/tracing/EigenResultsDouble.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Simple_Neurite_Tracer/src/main/java/tracing/CMTKInversePathTransformer.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Simple_Neurite_Tracer/src/main/java/tracing/TracerCanvas.java]>
using the class path: <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Simple_Neurite_Tracer/target/classes>:<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/3D_Viewer/target/3D_Viewer-2.0.0-SNAPSHOT.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/AnalyzeSkeleton_/target/AnalyzeSkeleton_-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-full/ws/src-plugins/Jama/target/Jama-1.0.2.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Skeletonize3D_/target/Skeletonize3D_-1.0.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/VIB-lib/target/VIB-lib-2.0.0-SNAPSHOT.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/VIB_/target/VIB_-2.0.0-SNAPSHOT.jar>:/home/jenkins/.m2/repository/batik/batik/1.8/batik-1.8.jar:/home/jenkins/.m2/repository/bouncycastle/bcmail-jdk14/138/bcmail-jdk14-138.jar:/home/jenkins/.m2/repository/bouncycastle/bcprov-jdk14/138/bcprov-jdk14-138.jar:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/commons-math/target/commons-math-3.0-SNAPSHOT.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/fiji-lib/target/fiji-lib-2.0.0-SNAPSHOT.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/ImageJA/target/ij-1.47a.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/imglib/imglib1/core/target/imglib-2.0.0-SNAPSHOT.jar>:/home/jenkins/.m2/repository/com/lowagie/itext/2.1.5/itext-2.1.5.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/org/jfree/jcommon/1.0.17/jcommon-1.0.17.jar:/home/jenkins/.m2/repository/org/jfree/jfreechart/1.0.14/jfreechart-1.0.14.jar:/home/jenkins/.m2/repository/junit/junit/4.8.1/junit-4.8.1.jar:/home/jenkins/.m2/repository/com/jcraft/jzlib/1.0.7/jzlib-1.0.7.jar:<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/pal-optimization/target/pal-optimization-2.0.0-SNAPSHOT.jar>:/home/jenkins/.m2/repository/javax/servlet/servlet-api/2.5/servlet-api-2.5.jar:<https://qa.nest-initiative.org/job/fiji-full/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/xml-apis/xml-apis/1.3.04/xml-apis-1.3.04.jar
Note: Some input files use or override a deprecated API.
Note: Recompile with -Xlint:deprecation for details.
Siox_Segmentation not up-to-date because 19 source files are not up-to-date (<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Siox_Segmentation/src/main/java/org/siox/ColorSignature.java/home/jenkins/workspace/fiji-full/src-plugins/Siox_Segmentation/src/main/java/org/siox/util/IntHashMap.java/home/jenkins/workspace/fiji-full/src-plugins/Siox_Segmentation/src/main/java/org/siox/util/IntArrayList.java/home/jenkins/workspace/fiji-full/src-plugins/Siox_Segmentation/src/main/java/org/siox/util/Utils.java/home/jenkins/workspace/fiji-full/src-plugins/Siox_Segmentation/src/main/java/org/siox/example/JRuler.java/home/jenkins/workspace/fiji-full/src-plugins/Siox_Segmentation/src/main/java/org/siox/example/ExtensionFileFilter.java/home/jenkins/workspace/fiji-full/src-plugins/Siox_Segmentation/src/main/java/org/siox/example/ImagePane.java/home/jenkins/workspace/fiji-full/src-plugins/Siox_Segmentation/src/main/java/org/siox/example/Main.java/home/jenkins/workspace/fiji-full/src-plugins/Siox_Segmentation/src/main/java/org/siox/example/ControlJPanel.java/home/jenkins/workspace/fiji-full/src-plugins/Siox_Segmentation/src/main/java/org/siox/example/ScrollDisplay.java/home/jenkins/workspace/fiji-full/src-plugins/Siox_Segmentation/src/main/java/org/siox/example/CursorFactory.java/home/jenkins/workspace/fiji-full/src-plugins/Siox_Segmentation/src/main/java/org/siox/SioxSegmentator.java/home/jenkins/workspace/fiji-full/src-plugins/Siox_Segmentation/src/main/java/siox/SegmentationGUI.java/home/jenkins/workspace/fiji-full/src-plugins/Siox_Segmentation/src/main/java/siox/SegmentationInfo.java/home/jenkins/workspace/fiji-full/src-plugins/Siox_Segmentation/src/main/java/siox/ImageOverlay.java/home/jenkins/workspace/fiji-full/src-plugins/Siox_Segmentation/src/main/java/siox/ControlJPanel.java/home/jenkins/workspace/fiji-full/src-plugins/Siox_Segmentation/src/main/java/siox/RoiOverlay.java/home/jenkins/workspace/fiji-full/src-plugins/Siox_Segmentation/src/main/java/siox/Siox_Segmentation.java/home/jenkins/workspace/fiji-full/src-plugins/Siox_Segmentation/src/main/java/siox/Load_Segmentation.java)>
Compiling 19 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Siox_Segmentation>
[-source, 1.5, -target, 1.5, -classpath, <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Siox_Segmentation/target/classes>:/home/jenkins/.m2/repository/com/apple/AppleJavaExtensions/1.5/AppleJavaExtensions-1.5.jar:<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/fiji-lib/target/fiji-lib-2.0.0-SNAPSHOT.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/ImageJA/target/ij-1.47a.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/java/linux/jdk1.6.0_24/jre/../lib/tools.jar,> -d, <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Siox_Segmentation/target/classes,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Siox_Segmentation/src/main/java/org/siox/ColorSignature.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Siox_Segmentation/src/main/java/org/siox/util/IntHashMap.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Siox_Segmentation/src/main/java/org/siox/util/IntArrayList.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Siox_Segmentation/src/main/java/org/siox/util/Utils.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Siox_Segmentation/src/main/java/org/siox/example/JRuler.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Siox_Segmentation/src/main/java/org/siox/example/ExtensionFileFilter.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Siox_Segmentation/src/main/java/org/siox/example/ImagePane.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Siox_Segmentation/src/main/java/org/siox/example/Main.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Siox_Segmentation/src/main/java/org/siox/example/ControlJPanel.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Siox_Segmentation/src/main/java/org/siox/example/ScrollDisplay.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Siox_Segmentation/src/main/java/org/siox/example/CursorFactory.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Siox_Segmentation/src/main/java/org/siox/SioxSegmentator.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Siox_Segmentation/src/main/java/siox/SegmentationGUI.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Siox_Segmentation/src/main/java/siox/SegmentationInfo.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Siox_Segmentation/src/main/java/siox/ImageOverlay.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Siox_Segmentation/src/main/java/siox/ControlJPanel.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Siox_Segmentation/src/main/java/siox/RoiOverlay.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Siox_Segmentation/src/main/java/siox/Siox_Segmentation.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Siox_Segmentation/src/main/java/siox/Load_Segmentation.java]>
using the class path: <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Siox_Segmentation/target/classes>:/home/jenkins/.m2/repository/com/apple/AppleJavaExtensions/1.5/AppleJavaExtensions-1.5.jar:<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/fiji-lib/target/fiji-lib-2.0.0-SNAPSHOT.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/ImageJA/target/ij-1.47a.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/java/linux/jdk1.6.0_24/jre/../lib/tools.jar>
Note: <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Siox_Segmentation/src/main/java/org/siox/example/ControlJPanel.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.
Snakuscule_ not up-to-date because 5 source files are not up-to-date (<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Snakuscule_/src/main/java/Snakuscule_.java/home/jenkins/workspace/fiji-full/src-plugins/Snakuscule_/src/main/java/snake2D/Snake2D.java/home/jenkins/workspace/fiji-full/src-plugins/Snakuscule_/src/main/java/snake2D/Snake2DScale.java/home/jenkins/workspace/fiji-full/src-plugins/Snakuscule_/src/main/java/snake2D/Snake2DKeeper.java/home/jenkins/workspace/fiji-full/src-plugins/Snakuscule_/src/main/java/snake2D/Snake2DNode.java)>
Compiling 5 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Snakuscule_>
[-source, 1.5, -target, 1.5, -classpath, <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Snakuscule_/target/classes>:/home/jenkins/.m2/repository/com/apple/AppleJavaExtensions/1.5/AppleJavaExtensions-1.5.jar:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/ImageJA/target/ij-1.47a.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/java/linux/jdk1.6.0_24/jre/../lib/tools.jar,> -d, <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Snakuscule_/target/classes,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Snakuscule_/src/main/java/Snakuscule_.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Snakuscule_/src/main/java/snake2D/Snake2D.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Snakuscule_/src/main/java/snake2D/Snake2DScale.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Snakuscule_/src/main/java/snake2D/Snake2DKeeper.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Snakuscule_/src/main/java/snake2D/Snake2DNode.java]>
using the class path: <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Snakuscule_/target/classes>:/home/jenkins/.m2/repository/com/apple/AppleJavaExtensions/1.5/AppleJavaExtensions-1.5.jar:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/ImageJA/target/ij-1.47a.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/java/linux/jdk1.6.0_24/jre/../lib/tools.jar>
Note: <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Snakuscule_/src/main/java/snake2D/Snake2DKeeper.java> uses or overrides a deprecated API.
Note: Recompile with -Xlint:deprecation for details.
SplineDeformationGenerator_ not up-to-date because 1 source files are not up-to-date (<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/SplineDeformationGenerator_/src/main/java/SplineDeformationGenerator/SplineDeformationGenerator_.java)>
Compiling 1 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/SplineDeformationGenerator_>
[-source, 1.5, -target, 1.5, -classpath, <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/SplineDeformationGenerator_/target/classes>:/home/jenkins/.m2/repository/com/apple/AppleJavaExtensions/1.5/AppleJavaExtensions-1.5.jar:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/ImageJA/target/ij-1.47a.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/java/linux/jdk1.6.0_24/jre/../lib/tools.jar,> -d, <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/SplineDeformationGenerator_/target/classes,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/SplineDeformationGenerator_/src/main/java/SplineDeformationGenerator/SplineDeformationGenerator_.java]>
using the class path: <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/SplineDeformationGenerator_/target/classes>:/home/jenkins/.m2/repository/com/apple/AppleJavaExtensions/1.5/AppleJavaExtensions-1.5.jar:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/ImageJA/target/ij-1.47a.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/java/linux/jdk1.6.0_24/jre/../lib/tools.jar>
Note: <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/SplineDeformationGenerator_/src/main/java/SplineDeformationGenerator/SplineDeformationGenerator_.java> uses or overrides a deprecated API.
Note: Recompile with -Xlint:deprecation for details.
Note: <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/SplineDeformationGenerator_/src/main/java/SplineDeformationGenerator/SplineDeformationGenerator_.java> uses unchecked or unsafe operations.
Note: Recompile with -Xlint:unchecked for details.
StackReg_ not up-to-date because 1 source files are not up-to-date (<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/StackReg_/src/main/java/StackReg_.java)>
Compiling 1 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/StackReg_>
[-source, 1.5, -target, 1.5, -classpath, <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/StackReg_/target/classes>:/home/jenkins/.m2/repository/com/apple/AppleJavaExtensions/1.5/AppleJavaExtensions-1.5.jar:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/ImageJA/target/ij-1.47a.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/java/linux/jdk1.6.0_24/jre/../lib/tools.jar,> -d, <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/StackReg_/target/classes,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/StackReg_/src/main/java/StackReg_.java]>
using the class path: <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/StackReg_/target/classes>:/home/jenkins/.m2/repository/com/apple/AppleJavaExtensions/1.5/AppleJavaExtensions-1.5.jar:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/ImageJA/target/ij-1.47a.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/java/linux/jdk1.6.0_24/jre/../lib/tools.jar>
<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/StackReg_/src/main/java/StackReg_.java>:1099: warning: non-varargs call of varargs method with inexact argument type for last parameter;
cast to java.lang.Class<?> for a varargs call
cast to java.lang.Class<?>[] for a non-varargs call and to suppress this warning
method = turboReg.getClass().getMethod("getSourcePoints", null);
^
<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/StackReg_/src/main/java/StackReg_.java>:1100: warning: non-varargs call of varargs method with inexact argument type for last parameter;
cast to java.lang.Object for a varargs call
cast to java.lang.Object[] for a non-varargs call and to suppress this warning
sourcePoints = ((double[][])method.invoke(turboReg, null));
^
<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/StackReg_/src/main/java/StackReg_.java>:1101: warning: non-varargs call of varargs method with inexact argument type for last parameter;
cast to java.lang.Class<?> for a varargs call
cast to java.lang.Class<?>[] for a non-varargs call and to suppress this warning
method = turboReg.getClass().getMethod("getTargetPoints", null);
^
<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/StackReg_/src/main/java/StackReg_.java>:1102: warning: non-varargs call of varargs method with inexact argument type for last parameter;
cast to java.lang.Object for a varargs call
cast to java.lang.Object[] for a non-varargs call and to suppress this warning
targetPoints = ((double[][])method.invoke(turboReg, null));
^
<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/StackReg_/src/main/java/StackReg_.java>:1356: warning: non-varargs call of varargs method with inexact argument type for last parameter;
cast to java.lang.Class<?> for a varargs call
cast to java.lang.Class<?>[] for a non-varargs call and to suppress this warning
method = turboRegR.getClass().getMethod("getTransformedImage", null);
^
<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/StackReg_/src/main/java/StackReg_.java>:1357: warning: non-varargs call of varargs method with inexact argument type for last parameter;
cast to java.lang.Object for a varargs call
cast to java.lang.Object[] for a non-varargs call and to suppress this warning
transformedSourceR = (ImagePlus)method.invoke(turboRegR, null);
^
<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/StackReg_/src/main/java/StackReg_.java>:1358: warning: non-varargs call of varargs method with inexact argument type for last parameter;
cast to java.lang.Class<?> for a varargs call
cast to java.lang.Class<?>[] for a non-varargs call and to suppress this warning
method = turboRegG.getClass().getMethod("getTransformedImage", null);
^
<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/StackReg_/src/main/java/StackReg_.java>:1359: warning: non-varargs call of varargs method with inexact argument type for last parameter;
cast to java.lang.Object for a varargs call
cast to java.lang.Object[] for a non-varargs call and to suppress this warning
transformedSourceG = (ImagePlus)method.invoke(turboRegG, null);
^
<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/StackReg_/src/main/java/StackReg_.java>:1360: warning: non-varargs call of varargs method with inexact argument type for last parameter;
cast to java.lang.Class<?> for a varargs call
cast to java.lang.Class<?>[] for a non-varargs call and to suppress this warning
method = turboRegB.getClass().getMethod("getTransformedImage", null);
^
<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/StackReg_/src/main/java/StackReg_.java>:1361: warning: non-varargs call of varargs method with inexact argument type for last parameter;
cast to java.lang.Object for a varargs call
cast to java.lang.Object[] for a non-varargs call and to suppress this warning
transformedSourceB = (ImagePlus)method.invoke(turboRegB, null);
^
<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/StackReg_/src/main/java/StackReg_.java>:1621: warning: non-varargs call of varargs method with inexact argument type for last parameter;
cast to java.lang.Class<?> for a varargs call
cast to java.lang.Class<?>[] for a non-varargs call and to suppress this warning
method = turboRegR.getClass().getMethod("getTransformedImage", null);
^
<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/StackReg_/src/main/java/StackReg_.java>:1622: warning: non-varargs call of varargs method with inexact argument type for last parameter;
cast to java.lang.Object for a varargs call
cast to java.lang.Object[] for a non-varargs call and to suppress this warning
transformedSourceR = (ImagePlus)method.invoke(turboRegR, null);
^
<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/StackReg_/src/main/java/StackReg_.java>:1623: warning: non-varargs call of varargs method with inexact argument type for last parameter;
cast to java.lang.Class<?> for a varargs call
cast to java.lang.Class<?>[] for a non-varargs call and to suppress this warning
method = turboRegG.getClass().getMethod("getTransformedImage", null);
^
<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/StackReg_/src/main/java/StackReg_.java>:1624: warning: non-varargs call of varargs method with inexact argument type for last parameter;
cast to java.lang.Object for a varargs call
cast to java.lang.Object[] for a non-varargs call and to suppress this warning
transformedSourceG = (ImagePlus)method.invoke(turboRegG, null);
^
<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/StackReg_/src/main/java/StackReg_.java>:1625: warning: non-varargs call of varargs method with inexact argument type for last parameter;
cast to java.lang.Class<?> for a varargs call
cast to java.lang.Class<?>[] for a non-varargs call and to suppress this warning
method = turboRegB.getClass().getMethod("getTransformedImage", null);
^
<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/StackReg_/src/main/java/StackReg_.java>:1626: warning: non-varargs call of varargs method with inexact argument type for last parameter;
cast to java.lang.Object for a varargs call
cast to java.lang.Object[] for a non-varargs call and to suppress this warning
transformedSourceB = (ImagePlus)method.invoke(turboRegB, null);
^
<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/StackReg_/src/main/java/StackReg_.java>:1758: warning: non-varargs call of varargs method with inexact argument type for last parameter;
cast to java.lang.Class<?> for a varargs call
cast to java.lang.Class<?>[] for a non-varargs call and to suppress this warning
method = turboReg.getClass().getMethod("getTransformedImage", null);
^
<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/StackReg_/src/main/java/StackReg_.java>:1759: warning: non-varargs call of varargs method with inexact argument type for last parameter;
cast to java.lang.Object for a varargs call
cast to java.lang.Object[] for a non-varargs call and to suppress this warning
ImagePlus transformedSource = (ImagePlus)method.invoke(turboReg, null);
^
18 warnings
Stack_Manipulation not up-to-date because 7 source files are not up-to-date (<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Stack_Manipulation/src/main/java/Kalman_Filter.java/home/jenkins/workspace/fiji-full/src-plugins/Stack_Manipulation/src/main/java/Stack_Splitter.java/home/jenkins/workspace/fiji-full/src-plugins/Stack_Manipulation/src/main/java/Slice_Keeper.java/home/jenkins/workspace/fiji-full/src-plugins/Stack_Manipulation/src/main/java/Slice_Remover.java/home/jenkins/workspace/fiji-full/src-plugins/Stack_Manipulation/src/main/java/Stack_Sorter.java/home/jenkins/workspace/fiji-full/src-plugins/Stack_Manipulation/src/main/java/DeInterleave_.java/home/jenkins/workspace/fiji-full/src-plugins/Stack_Manipulation/src/main/java/Stack_Interleaver.java)>
Compiling 7 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Stack_Manipulation>
[-source, 1.5, -target, 1.5, -classpath, <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Stack_Manipulation/target/classes>:/home/jenkins/.m2/repository/com/apple/AppleJavaExtensions/1.5/AppleJavaExtensions-1.5.jar:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/ImageJA/target/ij-1.47a.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/java/linux/jdk1.6.0_24/jre/../lib/tools.jar,> -d, <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Stack_Manipulation/target/classes,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Stack_Manipulation/src/main/java/Kalman_Filter.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Stack_Manipulation/src/main/java/Stack_Splitter.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Stack_Manipulation/src/main/java/Slice_Keeper.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Stack_Manipulation/src/main/java/Slice_Remover.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Stack_Manipulation/src/main/java/Stack_Sorter.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Stack_Manipulation/src/main/java/DeInterleave_.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Stack_Manipulation/src/main/java/Stack_Interleaver.java]>
using the class path: <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Stack_Manipulation/target/classes>:/home/jenkins/.m2/repository/com/apple/AppleJavaExtensions/1.5/AppleJavaExtensions-1.5.jar:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/ImageJA/target/ij-1.47a.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/java/linux/jdk1.6.0_24/jre/../lib/tools.jar>
Note: Some input files use or override a deprecated API.
Note: Recompile with -Xlint:deprecation for details.
Note: <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Stack_Manipulation/src/main/java/Kalman_Filter.java> uses unchecked or unsafe operations.
Note: Recompile with -Xlint:unchecked for details.
Statistical_Region_Merging not up-to-date because 1 source files are not up-to-date (<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Statistical_Region_Merging/src/main/java/SRM_.java)>
Compiling 1 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Statistical_Region_Merging>
[-source, 1.5, -target, 1.5, -classpath, <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Statistical_Region_Merging/target/classes>:/home/jenkins/.m2/repository/com/apple/AppleJavaExtensions/1.5/AppleJavaExtensions-1.5.jar:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/ImageJA/target/ij-1.47a.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/java/linux/jdk1.6.0_24/jre/../lib/tools.jar,> -d, <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Statistical_Region_Merging/target/classes,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Statistical_Region_Merging/src/main/java/SRM_.java]>
using the class path: <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Statistical_Region_Merging/target/classes>:/home/jenkins/.m2/repository/com/apple/AppleJavaExtensions/1.5/AppleJavaExtensions-1.5.jar:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/ImageJA/target/ij-1.47a.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/java/linux/jdk1.6.0_24/jre/../lib/tools.jar>
Sync_Win not up-to-date because 12 source files are not up-to-date (<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Sync_Win/src/main/java/DisplayChangeEvent.java/home/jenkins/workspace/fiji-full/src-plugins/Sync_Win/src/main/java/OpenStackAdapter.java/home/jenkins/workspace/fiji-full/src-plugins/Sync_Win/src/main/java/IntField.java/home/jenkins/workspace/fiji-full/src-plugins/Sync_Win/src/main/java/Sync_Windows.java/home/jenkins/workspace/fiji-full/src-plugins/Sync_Win/src/main/java/DisplayChangeListener.java/home/jenkins/workspace/fiji-full/src-plugins/Sync_Win/src/main/java/OpenStackWindow.java/home/jenkins/workspace/fiji-full/src-plugins/Sync_Win/src/main/java/OpenImage5DAdapter.java/home/jenkins/workspace/fiji-full/src-plugins/Sync_Win/src/main/java/IJEventMulticaster.java/home/jenkins/workspace/fiji-full/src-plugins/Sync_Win/src/main/java/Sync_Measure_3D.java/home/jenkins/workspace/fiji-full/src-plugins/Sync_Win/src/main/java/IntSlider.java/home/jenkins/workspace/fiji-full/src-plugins/Sync_Win/src/main/java/OpenImage5DWindow.java/home/jenkins/workspace/fiji-full/src-plugins/Sync_Win/src/main/java/TextFieldFocus.java)>
Compiling 12 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Sync_Win>
[-source, 1.5, -target, 1.5, -classpath, <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Sync_Win/target/classes>:/home/jenkins/.m2/repository/com/apple/AppleJavaExtensions/1.5/AppleJavaExtensions-1.5.jar:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/image5d/target/Image_5D-1.2.5.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/ImageJA/target/ij-1.47a.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/java/linux/jdk1.6.0_24/jre/../lib/tools.jar,> -d, <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Sync_Win/target/classes,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Sync_Win/src/main/java/DisplayChangeEvent.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Sync_Win/src/main/java/OpenStackAdapter.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Sync_Win/src/main/java/IntField.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Sync_Win/src/main/java/Sync_Windows.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Sync_Win/src/main/java/DisplayChangeListener.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Sync_Win/src/main/java/OpenStackWindow.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Sync_Win/src/main/java/OpenImage5DAdapter.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Sync_Win/src/main/java/IJEventMulticaster.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Sync_Win/src/main/java/Sync_Measure_3D.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Sync_Win/src/main/java/IntSlider.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Sync_Win/src/main/java/OpenImage5DWindow.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Sync_Win/src/main/java/TextFieldFocus.java]>
using the class path: <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Sync_Win/target/classes>:/home/jenkins/.m2/repository/com/apple/AppleJavaExtensions/1.5/AppleJavaExtensions-1.5.jar:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/image5d/target/Image_5D-1.2.5.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/ImageJA/target/ij-1.47a.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/java/linux/jdk1.6.0_24/jre/../lib/tools.jar>
Note: <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Sync_Win/src/main/java/Sync_Windows.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.
Thread_Killer not up-to-date because 1 source files are not up-to-date (<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Thread_Killer/src/main/java/Thread_Killer.java)>
Compiling 1 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Thread_Killer>
[-source, 1.5, -target, 1.5, -classpath, <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Thread_Killer/target/classes>:/home/jenkins/.m2/repository/com/apple/AppleJavaExtensions/1.5/AppleJavaExtensions-1.5.jar:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/ImageJA/target/ij-1.47a.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/java/linux/jdk1.6.0_24/jre/../lib/tools.jar,> -d, <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Thread_Killer/target/classes,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Thread_Killer/src/main/java/Thread_Killer.java]>
using the class path: <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Thread_Killer/target/classes>:/home/jenkins/.m2/repository/com/apple/AppleJavaExtensions/1.5/AppleJavaExtensions-1.5.jar:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/ImageJA/target/ij-1.47a.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/java/linux/jdk1.6.0_24/jre/../lib/tools.jar>
Note: <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Thread_Killer/src/main/java/Thread_Killer.java> uses or overrides a deprecated API.
Note: Recompile with -Xlint:deprecation for details.
Threshold_Colour not up-to-date because 3 source files are not up-to-date (<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Threshold_Colour/src/main/java/RGBtoLab_.java/home/jenkins/workspace/fiji-full/src-plugins/Threshold_Colour/src/main/java/Threshold_Colour.java/home/jenkins/workspace/fiji-full/src-plugins/Threshold_Colour/src/main/java/RGBtoYUV_.java)>
Compiling 3 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Threshold_Colour>
[-source, 1.5, -target, 1.5, -classpath, <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Threshold_Colour/target/classes>:/home/jenkins/.m2/repository/com/apple/AppleJavaExtensions/1.5/AppleJavaExtensions-1.5.jar:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/ImageJA/target/ij-1.47a.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/java/linux/jdk1.6.0_24/jre/../lib/tools.jar,> -d, <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Threshold_Colour/target/classes,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Threshold_Colour/src/main/java/RGBtoLab_.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Threshold_Colour/src/main/java/Threshold_Colour.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Threshold_Colour/src/main/java/RGBtoYUV_.java]>
using the class path: <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Threshold_Colour/target/classes>:/home/jenkins/.m2/repository/com/apple/AppleJavaExtensions/1.5/AppleJavaExtensions-1.5.jar:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/ImageJA/target/ij-1.47a.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/java/linux/jdk1.6.0_24/jre/../lib/tools.jar>
Time_Stamper not up-to-date because 1 source files are not up-to-date (<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Time_Stamper/src/main/java/Time_Stamper.java)>
Compiling 1 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Time_Stamper>
[-source, 1.5, -target, 1.5, -classpath, <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Time_Stamper/target/classes>:/home/jenkins/.m2/repository/com/apple/AppleJavaExtensions/1.5/AppleJavaExtensions-1.5.jar:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/ImageJA/target/ij-1.47a.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/java/linux/jdk1.6.0_24/jre/../lib/tools.jar,> -d, <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Time_Stamper/target/classes,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Time_Stamper/src/main/java/Time_Stamper.java]>
using the class path: <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Time_Stamper/target/classes>:/home/jenkins/.m2/repository/com/apple/AppleJavaExtensions/1.5/AppleJavaExtensions-1.5.jar:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/ImageJA/target/ij-1.47a.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/java/linux/jdk1.6.0_24/jre/../lib/tools.jar>
ToAST_ not up-to-date because 2 source files are not up-to-date (<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/ToAST_/src/main/java/ToAST25_.java/home/jenkins/workspace/fiji-full/src-plugins/ToAST_/src/main/java/parObject.java)>
Compiling 2 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/ToAST_>
[-source, 1.5, -target, 1.5, -classpath, <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/ToAST_/target/classes>:/home/jenkins/.m2/repository/com/apple/AppleJavaExtensions/1.5/AppleJavaExtensions-1.5.jar:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/ImageJA/target/ij-1.47a.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/java/linux/jdk1.6.0_24/jre/../lib/tools.jar,> -d, <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/ToAST_/target/classes,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/ToAST_/src/main/java/ToAST25_.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/ToAST_/src/main/java/parObject.java]>
using the class path: <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/ToAST_/target/classes>:/home/jenkins/.m2/repository/com/apple/AppleJavaExtensions/1.5/AppleJavaExtensions-1.5.jar:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/ImageJA/target/ij-1.47a.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/java/linux/jdk1.6.0_24/jre/../lib/tools.jar>
Note: <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/ToAST_/src/main/java/ToAST25_.java> uses or overrides a deprecated API.
Note: Recompile with -Xlint:deprecation for details.
Note: <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/ToAST_/src/main/java/ToAST25_.java> uses unchecked or unsafe operations.
Note: Recompile with -Xlint:unchecked for details.
TopoJ_ not up-to-date because 2 source files are not up-to-date (<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/TopoJ_/src/main/java/Compute_Topography.java/home/jenkins/workspace/fiji-full/src-plugins/TopoJ_/src/main/java/Remove_Slope.java)>
Compiling 2 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/TopoJ_>
[-source, 1.5, -target, 1.5, -classpath, <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/TopoJ_/target/classes>:/home/jenkins/.m2/repository/com/apple/AppleJavaExtensions/1.5/AppleJavaExtensions-1.5.jar:<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Jama/target/Jama-1.0.2.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/ImageJA/target/ij-1.47a.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/java/linux/jdk1.6.0_24/jre/../lib/tools.jar,> -d, <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/TopoJ_/target/classes,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/TopoJ_/src/main/java/Compute_Topography.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/TopoJ_/src/main/java/Remove_Slope.java]>
using the class path: <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/TopoJ_/target/classes>:/home/jenkins/.m2/repository/com/apple/AppleJavaExtensions/1.5/AppleJavaExtensions-1.5.jar:<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Jama/target/Jama-1.0.2.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/ImageJA/target/ij-1.47a.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/java/linux/jdk1.6.0_24/jre/../lib/tools.jar>
Note: <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/TopoJ_/src/main/java/Remove_Slope.java> uses or overrides a deprecated API.
Note: Recompile with -Xlint:deprecation for details.
Parsing /home/jenkins/.m2/repository/org/jdom/jdom-contrib/1.1.3/jdom-contrib-1.1.3.pom
Parsing /home/jenkins/.m2/repository/org/jdom/jdom/1.1.3/jdom-1.1.3.pom
Parsing /home/jenkins/.m2/repository/jgrapht/jgrapht-jdk1.6/0.8.1/jgrapht-jdk1.6-0.8.1.pom
Parsing /home/jenkins/.m2/repository/jgraph/jgraphx/1.10.0.3/jgraphx-1.10.0.3.pom
TrackMate_ not up-to-date because 185 source files are not up-to-date 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Compiling 185 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/TrackMate_>
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using the class path: <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Trainable_Segmentation/target/classes>:<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Anisotropic_Diffusion_2D/target/Anisotropic_Diffusion_2D-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-full/ws/src-plugins/Fiji_Plugins/target/Fiji_Plugins-2.0.0-SNAPSHOT.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/image5d/target/Image_5D-1.2.5.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Jama/target/Jama-1.0.2.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Stitching_/target/Stitching_-2.0.0-SNAPSHOT.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/VIB-lib/target/VIB-lib-2.0.0-SNAPSHOT.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/bio-formats/components/bio-formats/target/bio-formats-4.4-SNAPSHOT.jar>:/home/jenkins/.m2/repository/com/sun/clibwrapper_jiio/1.1/clibwrapper_jiio-1.1.jar:/home/jenkins/.m2/repository/commons-logging/commons-logging/1.1.1/commons-logging-1.1.1.jar:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/commons-math/target/commons-math-3.0-SNAPSHOT.jar>:<https://qa.nest-initiative.org/job/fiji-full/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:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/ImageJA/target/ij-1.47a.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/imagescience/target/imagescience-2.4.1.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/imglib/imglib1/core/target/imglib-2.0.0-SNAPSHOT.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/imglib/imglib1/algorithms/target/imglib-algorithms-2.0.0-SNAPSHOT.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/imglib/imglib1/ij/target/imglib-ij-2.0.0-SNAPSHOT.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/imglib/imglib2/core/target/imglib2-2.0.0-SNAPSHOT.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/imglib/imglib2/algorithms/core/target/imglib2-algorithms-2.0.0-SNAPSHOT.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/imglib/imglib2/ij/target/imglib2-ij-2.0.0-SNAPSHOT.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:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/bio-formats/components/forks/jai/target/jai_imageio-4.4-SNAPSHOT.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/com/jcraft/jsch/0.1.42/jsch-0.1.42.jar:/home/jenkins/.m2/repository/junit/junit/4.8.1/junit-4.8.1.jar:/home/jenkins/.m2/repository/com/jcraft/jzlib/1.0.7/jzlib-1.0.7.jar:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/bio-formats/components/common/target/loci-common-4.4-SNAPSHOT.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/bio-formats/components/loci-plugins/target/loci_plugins-4.4-SNAPSHOT.jar>:/home/jenkins/.m2/repository/log4j/log4j/1.2.14/log4j-1.2.14.jar:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/bio-formats/components/stubs/lwf-stubs/target/lwf-stubs-4.4-SNAPSHOT.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/bio-formats/components/forks/mdbtools/target/mdbtools-java-4.4-SNAPSHOT.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/bio-formats/components/metakit/target/metakit-4.4-SNAPSHOT.jar>:/home/jenkins/.m2/repository/edu/mines/mines-jtk/20100113/mines-jtk-20100113.jar:/home/jenkins/.m2/repository/mpicbg/mpicbg/20111128/mpicbg-20111128.jar:/home/jenkins/.m2/repository/mpicbg/mpicbg/20120621/mpicbg-20120621.jar:/home/jenkins/.m2/repository/essi-unidata/netcdf-java/4.0.41/netcdf-java-4.0.41.jar:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/bio-formats/components/ome-xml/target/ome-xml-4.4-SNAPSHOT.jar>:<https://qa.nest-initiative.org/job/fiji-full/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:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/bio-formats/components/forks/poi/target/poi-loci-4.4-SNAPSHOT.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/bio-formats/components/scifio/target/scifio-4.4-SNAPSHOT.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-full/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
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.
TransformJ_ not up-to-date because 14 source files are not up-to-date (<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/TransformJ_/src/main/java/TJ_Matrix.java/home/jenkins/workspace/fiji-full/src-plugins/TransformJ_/src/main/java/TJ_Rotate.java/home/jenkins/workspace/fiji-full/src-plugins/TransformJ_/src/main/java/TJ_Crop.java/home/jenkins/workspace/fiji-full/src-plugins/TransformJ_/src/main/java/TJ_Translate.java/home/jenkins/workspace/fiji-full/src-plugins/TransformJ_/src/main/java/TJ_Mirror.java/home/jenkins/workspace/fiji-full/src-plugins/TransformJ_/src/main/java/TJ_Turn.java/home/jenkins/workspace/fiji-full/src-plugins/TransformJ_/src/main/java/TJ_Affine.java/home/jenkins/workspace/fiji-full/src-plugins/TransformJ_/src/main/java/TJ_Scale.java/home/jenkins/workspace/fiji-full/src-plugins/TransformJ_/src/main/java/TJ.java/home/jenkins/workspace/fiji-full/src-plugins/TransformJ_/src/main/java/TJ_About.java/home/jenkins/workspace/fiji-full/src-plugins/TransformJ_/src/main/java/TJ_Panel.java/home/jenkins/workspace/fiji-full/src-plugins/TransformJ_/src/main/java/TJ_Options.java/home/jenkins/workspace/fiji-full/src-plugins/TransformJ_/src/main/java/TJ_Website.java/home/jenkins/workspace/fiji-full/src-plugins/TransformJ_/src/main/java/TJ_Embed.java)>
Compiling 14 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/TransformJ_>
[-source, 1.5, -target, 1.5, -classpath, <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/TransformJ_/target/classes>:/home/jenkins/.m2/repository/com/apple/AppleJavaExtensions/1.5/AppleJavaExtensions-1.5.jar:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/image5d/target/Image_5D-1.2.5.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/ImageJA/target/ij-1.47a.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/imagescience/target/imagescience-2.4.1.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/java/linux/jdk1.6.0_24/jre/../lib/tools.jar,> -d, <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/TransformJ_/target/classes,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/TransformJ_/src/main/java/TJ_Matrix.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/TransformJ_/src/main/java/TJ_Rotate.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/TransformJ_/src/main/java/TJ_Crop.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/TransformJ_/src/main/java/TJ_Translate.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/TransformJ_/src/main/java/TJ_Mirror.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/TransformJ_/src/main/java/TJ_Turn.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/TransformJ_/src/main/java/TJ_Affine.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/TransformJ_/src/main/java/TJ_Scale.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/TransformJ_/src/main/java/TJ.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/TransformJ_/src/main/java/TJ_About.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/TransformJ_/src/main/java/TJ_Panel.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/TransformJ_/src/main/java/TJ_Options.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/TransformJ_/src/main/java/TJ_Website.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/TransformJ_/src/main/java/TJ_Embed.java]>
using the class path: <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/TransformJ_/target/classes>:/home/jenkins/.m2/repository/com/apple/AppleJavaExtensions/1.5/AppleJavaExtensions-1.5.jar:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/image5d/target/Image_5D-1.2.5.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/ImageJA/target/ij-1.47a.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/imagescience/target/imagescience-2.4.1.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/java/linux/jdk1.6.0_24/jre/../lib/tools.jar>
Note: <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/TransformJ_/src/main/java/TJ_Matrix.java> uses unchecked or unsafe operations.
Note: Recompile with -Xlint:unchecked for details.
TurboReg_ not up-to-date because 1 source files are not up-to-date (<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/TurboReg_/src/main/java/TurboReg_.java)>
Compiling 1 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/TurboReg_>
[-source, 1.5, -target, 1.5, -classpath, <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/TurboReg_/target/classes>:/home/jenkins/.m2/repository/com/apple/AppleJavaExtensions/1.5/AppleJavaExtensions-1.5.jar:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/ImageJA/target/ij-1.47a.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/java/linux/jdk1.6.0_24/jre/../lib/tools.jar,> -d, <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/TurboReg_/target/classes,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/TurboReg_/src/main/java/TurboReg_.java]>
using the class path: <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/TurboReg_/target/classes>:/home/jenkins/.m2/repository/com/apple/AppleJavaExtensions/1.5/AppleJavaExtensions-1.5.jar:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/ImageJA/target/ij-1.47a.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/java/linux/jdk1.6.0_24/jre/../lib/tools.jar>
Note: <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/TurboReg_/src/main/java/TurboReg_.java> uses or overrides a deprecated API.
Note: Recompile with -Xlint:deprecation for details.
UnwarpJ_ not up-to-date because 1 source files are not up-to-date (<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/UnwarpJ_/src/main/java/UnwarpJ_.java)>
Compiling 1 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/UnwarpJ_>
[-source, 1.5, -target, 1.5, -classpath, <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/UnwarpJ_/target/classes>:/home/jenkins/.m2/repository/com/apple/AppleJavaExtensions/1.5/AppleJavaExtensions-1.5.jar:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/ImageJA/target/ij-1.47a.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/java/linux/jdk1.6.0_24/jre/../lib/tools.jar,> -d, <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/UnwarpJ_/target/classes,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/UnwarpJ_/src/main/java/UnwarpJ_.java]>
using the class path: <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/UnwarpJ_/target/classes>:/home/jenkins/.m2/repository/com/apple/AppleJavaExtensions/1.5/AppleJavaExtensions-1.5.jar:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/ImageJA/target/ij-1.47a.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/java/linux/jdk1.6.0_24/jre/../lib/tools.jar>
Note: <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/UnwarpJ_/src/main/java/UnwarpJ_.java> uses or overrides a deprecated API.
Note: Recompile with -Xlint:deprecation for details.
Note: <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/UnwarpJ_/src/main/java/UnwarpJ_.java> uses unchecked or unsafe operations.
Note: Recompile with -Xlint:unchecked for details.
Updater_Fix not up-to-date because 2 source files are not up-to-date (<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Updater_Fix/src/main/java/fiji/updater/BinaryPList.java/home/jenkins/workspace/fiji-full/src-plugins/Updater_Fix/src/main/java/fiji/updater/Fix.java)>
Compiling 2 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Updater_Fix>
[-source, 1.5, -target, 1.5, -classpath, <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Updater_Fix/target/classes,> -d, <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Updater_Fix/target/classes,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Updater_Fix/src/main/java/fiji/updater/BinaryPList.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Updater_Fix/src/main/java/fiji/updater/Fix.java]>
using the class path: <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Updater_Fix/target/classes>
Note: <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Updater_Fix/src/main/java/fiji/updater/BinaryPList.java> uses unchecked or unsafe operations.
Note: Recompile with -Xlint:unchecked for details.
Vaa3d_Reader not up-to-date because 6 source files are not up-to-date (<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Vaa3d_Reader/src/main/java/org/janelia/vaa3d/reader/Pbd16InputStream.java/home/jenkins/workspace/fiji-full/src-plugins/Vaa3d_Reader/src/main/java/org/janelia/vaa3d/reader/TestReader.java/home/jenkins/workspace/fiji-full/src-plugins/Vaa3d_Reader/src/main/java/org/janelia/vaa3d/reader/PbdInputStream.java/home/jenkins/workspace/fiji-full/src-plugins/Vaa3d_Reader/src/main/java/org/janelia/vaa3d/reader/Pbd8InputStream.java/home/jenkins/workspace/fiji-full/src-plugins/Vaa3d_Reader/src/main/java/org/janelia/vaa3d/reader/Vaa3d_Reader.java/home/jenkins/workspace/fiji-full/src-plugins/Vaa3d_Reader/src/main/java/org/janelia/vaa3d/reader/V3dRawImageStream.java)>
Compiling 6 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Vaa3d_Reader>
[-source, 1.5, -target, 1.5, -classpath, <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Vaa3d_Reader/target/classes>:/home/jenkins/.m2/repository/com/apple/AppleJavaExtensions/1.5/AppleJavaExtensions-1.5.jar:<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/fiji-lib/target/fiji-lib-2.0.0-SNAPSHOT.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/ImageJA/target/ij-1.47a.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/java/linux/jdk1.6.0_24/jre/../lib/tools.jar,> -d, <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Vaa3d_Reader/target/classes,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Vaa3d_Reader/src/main/java/org/janelia/vaa3d/reader/Pbd16InputStream.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Vaa3d_Reader/src/main/java/org/janelia/vaa3d/reader/TestReader.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Vaa3d_Reader/src/main/java/org/janelia/vaa3d/reader/PbdInputStream.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Vaa3d_Reader/src/main/java/org/janelia/vaa3d/reader/Pbd8InputStream.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Vaa3d_Reader/src/main/java/org/janelia/vaa3d/reader/Vaa3d_Reader.java,> <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Vaa3d_Reader/src/main/java/org/janelia/vaa3d/reader/V3dRawImageStream.java]>
using the class path: <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Vaa3d_Reader/target/classes>:/home/jenkins/.m2/repository/com/apple/AppleJavaExtensions/1.5/AppleJavaExtensions-1.5.jar:<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/fiji-lib/target/fiji-lib-2.0.0-SNAPSHOT.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/modules/ImageJA/target/ij-1.47a.jar>:<https://qa.nest-initiative.org/job/fiji-full/ws/java/linux/jdk1.6.0_24/jre/../lib/tools.jar>
<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Vaa3d_Reader/src/main/java/org/janelia/vaa3d/reader/Vaa3d_Reader.java>:107: cannot find symbol
symbol : method createHyperStack(java.lang.String,int,int,int,int,int,int)
location: class ij.IJ
ImagePlus hyperStack = IJ.createHyperStack(
^
1 error
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:253)
at fiji.build.minimaven.POM.buildJar(POM.java:194)
at fiji.build.SubFake.buildPOM(SubFake.java:270)
at fiji.build.SubFake.buildPOM(SubFake.java:255)
at fiji.build.SubFake.action(SubFake.java:223)
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:245)
at fiji.build.Fake.main(Fake.java:60)
Compile error: 1
in rule (fiji.build.SubFake) pom-fiji-plugins <- src-plugins/
in rule (fiji.build.All) all <- ImageJ fiji pom-fiji-plugins
Build step 'Execute shell' marked build as failure
Archiving artifacts
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