[ImageJ-builds] Build failed in Jenkins: fiji-core #797
Jenkins Daemon
jenkins at qa.nest-initiative.org
Thu Aug 8 07:49:23 CDT 2013
See <https://qa.nest-initiative.org/job/fiji-core/797/changes>
Changes:
[jenkins] Bump to pom-scijava 1.62
[jean-yves.tinevez] importTrackMateTracks: a MATLAB script to import TrackMate track files.
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Note: <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/Manual_Tracking/src/main/java/Manual_Tracking.java> uses or overrides a deprecated API.
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Compiling 1 files in <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/MosaicJ_>
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Compiling 4 files in <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/Multi_Kymograph>
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Compiling 4 files in <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/PIV_analyser>
Compiling 1 files in <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/PointPicker_>
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Compiling 14 files in <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/QuickPALM_>
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Compiling 3 files in <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/RATS_>
Compiling 11 files in <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/RandomJ_>
Compiling 14 files in <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/Reconstruct_Reader>
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Compiling 2 files in <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/Scala_Interpreter>
Warning: deleting '<https://qa.nest-initiative.org/job/fiji-core/ws/jars/jai_imageio-4.4.8.jar'>
Compiling 3 files in <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/Series_Labeler>
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Compiling 1 files in <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SheppLogan_>
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Compiling 2 files in <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/Sholl_Analysis>
Warning: deleting '<https://qa.nest-initiative.org/job/fiji-core/ws/jars/jai_imageio-1.0.1.jar'>
Compiling 19 files in <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/Siox_Segmentation>
Note: <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/Siox_Segmentation/src/main/java/org/siox/example/ControlJPanel.java> uses or overrides a deprecated API.
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Compiling 5 files in <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/Snakuscule_>
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Compiling 1 files in <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/SplineDeformationGenerator_>
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Compiling 1 files in <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/StackReg_>
<https://qa.nest-initiative.org/job/fiji-core/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-core/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-core/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-core/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-core/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-core/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-core/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-core/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-core/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-core/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-core/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-core/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-core/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-core/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-core/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-core/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-core/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-core/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-core/ws/src-plugins/Stack_Manipulation>
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Compiling 1 files in <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/Statistical_Region_Merging>
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Compiling 1 files in <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/Thread_Killer>
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Compiling 3 files in <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/Threshold_Colour>
Compiling 1 files in <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/Time_Stamper>
Compiling 2 files in <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/ToAST_>
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Compiling 2 files in <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/TopoJ_>
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Compiling 263 files in <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/TrackMate_>
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Compiling 37 files in <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/Trainable_Segmentation>
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Compiling 14 files in <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/TransformJ_>
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Compiling 1 files in <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/TurboReg_>
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Compiling 1 files in <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/UnwarpJ_>
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Compiling 2 files in <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/Updater_Fix>
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Compiling 6 files in <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/Vaa3d_Reader>
Compiling 10 files in <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/Video_Editing>
Compiling 37 files in <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/View5D_>
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Compiling 7 files in <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/Volume_Calculator>
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Compiling 18 files in <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/Volume_Viewer>
Compiling 3 files in <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/blockmatching_>
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Warning: deleting '<https://qa.nest-initiative.org/job/fiji-core/ws/jars/jai_imageio-4.4.8.jar'>
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Compiling 1 files in <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/mij>
Compiling 6 files in <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/panorama_>
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Compiling 2 files in <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/register_virtual_stack_slices>
Note: <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/register_virtual_stack_slices/src/main/java/register_virtual_stack/Register_Virtual_Stack_MT.java> uses unchecked or unsafe operations.
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Compiling 1 files in <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/registration_3d>
Compiling 1 files in <https://qa.nest-initiative.org/job/fiji-core/ws/src-plugins/weave_jy2java>
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Warning: deleting '<https://qa.nest-initiative.org/job/fiji-core/ws/jars/jai_imageio-4.4.8.jar'>
Looking at children of pom-fiji-submodules
% Total % Received % Xferd Average Speed Time Time Time Current
Dload Upload Total Spent Left Speed
0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0
100 651 100 651 0 0 2510 0 --:--:-- --:--:-- --:--:-- 5007
% Total % Received % Xferd Average Speed Time Time Time Current
Dload Upload Total Spent Left Speed
0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0
100 16900 100 16900 0 0 30794 0 --:--:-- --:--:-- --:--:-- 46685
% Total % Received % Xferd Average Speed Time Time Time Current
Dload Upload Total Spent Left Speed
0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0
100 30341 100 30341 0 0 59907 0 --:--:-- --:--:-- --:--:-- 79844
++ uname -m
+ test i686 = x86_64
+ PLATFORM=linux
+ ./bin/make-app.py nojre linux
Making app
Traceback (most recent call last):
File "./bin/make-app.py", line 109, in <module>
make_app()
File "./bin/make-app.py", line 47, in make_app
shutil.copytree(d, 'Fiji.app/' + d)
File "<https://qa.nest-initiative.org/job/fiji-core/ws/jars/jython-2.5.2.jar/Lib/shutil.py",> line 138, in copytree
shutil.Error: [('scripts/importTrackMateTracks.m', 'Fiji.app/scripts/importTrackMateTracks.m', "[Errno 2] No such file or directory: 'scripts/importTrackMateTracks.m'")]
Build step 'Execute shell' marked build as failure
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