[ImageJ-builds] Build failed in Jenkins: fiji-full #585

Jenkins Daemon jenkins at qa.nest-initiative.org
Sat Jan 12 16:30:18 CST 2013 

See <https://qa.nest-initiative.org/job/fiji-full/585/changes>

Changes:

[Johannes Schindelin] Build.sh: make sure that ij-core is updated, too

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[...truncated 679 lines...]
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Compiling 45 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Image_Expression_Parser>
Compiling 12 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Interactive_3D_Surface_Plot>
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Compiling 1 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/IsoData_Classifier>
Compiling 2 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/JRuby_Interpreter>
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Compiling 2 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Javascript_>
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Compiling 2 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Jython_Interpreter>
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Compiling 1 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Kuwahara_Filter>
Compiling 6 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/LSM_Reader>
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Compiling 46 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/LSM_Toolbox>
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Compiling 5 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Lasso_and_Blow_Tool>
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Compiling 5 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/MTrackJ_>
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Compiling 1 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/M_I_P>
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Compiling 1 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/MosaicJ_>
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Compiling 4 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Multi_Kymograph>
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Compiling 4 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/PIV_analyser>
Compiling 1 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/PointPicker_>
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Compiling 14 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/QuickPALM_>
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Compiling 3 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/RATS_>
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Compiling 14 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Reconstruct_Reader>
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Compiling 2 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Refresh_Javas>
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Compiling 16 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/SPIM_Opener>
Compiling 146 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/SPIM_Registration>
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Compiling 2 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Scala_Interpreter>
Compiling 38 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Script_Editor>
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Compiling 3 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Series_Labeler>
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Compiling 1 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/SheppLogan_>
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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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Compiling 19 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Siox_Segmentation>
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Compiling 1 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Skeletonize3D_>
Compiling 5 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Snakuscule_>
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Compiling 1 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/SplineDeformationGenerator_>
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Compiling 1 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/StackReg_>
<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
Compiling 7 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Stack_Manipulation>
Note: Some input files use or override a deprecated API.
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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.
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Compiling 1 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Statistical_Region_Merging>
Compiling 59 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Stitching_>
Note: Some input files use or override a deprecated API.
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Warning: deleting '<https://qa.nest-initiative.org/job/fiji-full/ws/jars/mpicbg-20120621.jar'>
Warning: deleting '<https://qa.nest-initiative.org/job/fiji-full/ws/jars/mpicbg-20111128.jar'>
Compiling 12 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Sync_Win>
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Compiling 1 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Thread_Killer>
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.
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Compiling 3 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Threshold_Colour>
Compiling 1 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Time_Stamper>
Compiling 2 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/ToAST_>
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Compiling 2 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/TopoJ_>
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.
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Compiling 185 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/TrackMate_>
Warning: deleting '<https://qa.nest-initiative.org/job/fiji-full/ws/jars/mpicbg-20120621.jar'>
Compiling 37 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Trainable_Segmentation>
<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Trainable_Segmentation/src/main/java/trainableSegmentation/utils/Utils.java>:733: cannot find symbol
symbol  : constructor ByteProcessor(int,int,byte[])
location: class ij.process.ByteProcessor
			isMaxPoolLabel.addSlice( new ByteProcessor( maxPoolWidth, maxPoolHeight, labelPix));
			                         ^
<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Trainable_Segmentation/src/main/java/trainableSegmentation/utils/Utils.java>:796: cannot find symbol
symbol  : constructor ByteProcessor(int,int,byte[])
location: class ij.process.ByteProcessor
			isMaxPoolLabel.addSlice( new ByteProcessor( width, height, labelPix));
			                         ^
Note: <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Trainable_Segmentation/src/main/java/trainableSegmentation/Weka_Segmentation.java> uses or overrides a deprecated API.
Note: Recompile with -Xlint:deprecation for details.
Note: Some input files use unchecked or unsafe operations.
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2 errors
Exception in thread "main" imagej.build.minimaven.JavaCompiler$CompileError: Compile error: 1
	at imagej.build.minimaven.JavaCompiler.call(JavaCompiler.java:83)
	at imagej.build.minimaven.MavenProject.build(MavenProject.java:376)
	at imagej.build.minimaven.MavenProject.buildJar(MavenProject.java:301)
	at imagej.build.minimaven.MavenProject.buildAndInstall(MavenProject.java:285)
	at imagej.build.minimaven.MavenProject.buildAndInstall(MavenProject.java:280)
	at imagej.build.minimaven.MavenProject.buildAndInstall(MavenProject.java:280)
	at imagej.build.minimaven.MavenProject.buildAndInstall(MavenProject.java:260)
	at imagej.build.MiniMaven.main(MiniMaven.java:133)
Build step 'Execute shell' marked build as failure

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