[ImageJ-builds] Build failed in Jenkins: fiji-windows-full #101
Jenkins Daemon
jenkins at qa.nest-initiative.org
Tue Jul 17 15:03:02 CDT 2012
See <https://qa.nest-initiative.org/job/fiji-windows-full/101/changes>
Changes:
[johannes.schindelin] Bead Registration: only record values when the dialog was not canceled
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[...truncated 1278 lines...]
[javac] ^
[javac] Note: Some input files use unchecked or unsafe operations.
[javac] Note: Recompile with -Xlint:unchecked for details.
[javac] 1 warning
scifio.jar:
[jar] Building jar: <https://qa.nest-initiative.org/job/fiji-windows-full/ws/modules\bio-formats\artifacts\scifio.jar>
jar-formats:
init-title:
[echo] ----------=========== bio-formats ===========----------
init-timestamp:
init-version:
init-manifest-cp:
init:
copy-source:
[copy] Copying 1 file to <https://qa.nest-initiative.org/job/fiji-windows-full/ws/modules\bio-formats\components\bio-formats\build\src>
[copy] Copying 129 files to <https://qa.nest-initiative.org/job/fiji-windows-full/ws/modules\bio-formats\components\bio-formats\build\src>
[copy] Copying 1 file to <https://qa.nest-initiative.org/job/fiji-windows-full/ws/modules\bio-formats\components\bio-formats\build\classes>
[copy] Copied 6 empty directories to 3 empty directories under <https://qa.nest-initiative.org/job/fiji-windows-full/ws/modules\bio-formats\components\bio-formats\build\classes>
compile:
[javac] Compiling 127 source files to <https://qa.nest-initiative.org/job/fiji-windows-full/ws/modules\bio-formats\components\bio-formats\build\classes>
[javac] <https://qa.nest-initiative.org/job/fiji-windows-full/ws/modules\bio-formats\components\bio-formats\build\src\loci\formats\in\TrestleReader.java>:320: warning: [deprecation] isOMEXMLMetadata(java.lang.Object) in loci.formats.MetadataTools has been deprecated
[javac] if (MetadataTools.isOMEXMLMetadata(store) ||
[javac] ^
[javac] <https://qa.nest-initiative.org/job/fiji-windows-full/ws/modules\bio-formats\components\bio-formats\build\src\loci\formats\in\TrestleReader.java>:321: warning: [deprecation] isOMEXMLRoot(java.lang.Object) in loci.formats.MetadataTools has been deprecated
[javac] MetadataTools.isOMEXMLRoot(store.getRoot()))
[javac] ^
[javac] Note: Some input files use unchecked or unsafe operations.
[javac] Note: Recompile with -Xlint:unchecked for details.
[javac] 2 warnings
formats.jar:
[jar] Building jar: <https://qa.nest-initiative.org/job/fiji-windows-full/ws/modules\bio-formats\artifacts\bio-formats.jar>
jar-loci-plugins:
init-title:
[echo] ----------=========== loci_plugins ===========----------
init-timestamp:
init-version:
init-manifest-cp:
init:
copy-source:
[copy] Copying 82 files to <https://qa.nest-initiative.org/job/fiji-windows-full/ws/modules\bio-formats\components\loci-plugins\build\src>
[copy] Copying 3 files to <https://qa.nest-initiative.org/job/fiji-windows-full/ws/modules\bio-formats\components\loci-plugins\build\classes>
[copy] Copied 10 empty directories to 5 empty directories under <https://qa.nest-initiative.org/job/fiji-windows-full/ws/modules\bio-formats\components\loci-plugins\build\classes>
compile:
[javac] Compiling 71 source files to <https://qa.nest-initiative.org/job/fiji-windows-full/ws/modules\bio-formats\components\loci-plugins\build\classes>
loci-plugins.jar:
[jar] Building jar: <https://qa.nest-initiative.org/job/fiji-windows-full/ws/modules\bio-formats\artifacts\loci_plugins.jar>
tools:
[echo] ----------=========== loci_tools ===========----------
[unjar] Expanding: <https://qa.nest-initiative.org/job/fiji-windows-full/ws/modules\bio-formats\artifacts\bio-formats.jar> into <https://qa.nest-initiative.org/job/fiji-windows-full/ws/modules\bio-formats\loci-tools>
[unjar] Expanding: <https://qa.nest-initiative.org/job/fiji-windows-full/ws/modules\bio-formats\artifacts\clibwrapper_jiio.jar> into <https://qa.nest-initiative.org/job/fiji-windows-full/ws/modules\bio-formats\loci-tools>
[unjar] Expanding: <https://qa.nest-initiative.org/job/fiji-windows-full/ws/modules\bio-formats\artifacts\forms-1.3.0.jar> into <https://qa.nest-initiative.org/job/fiji-windows-full/ws/modules\bio-formats\loci-tools>
[unjar] Expanding: <https://qa.nest-initiative.org/job/fiji-windows-full/ws/modules\bio-formats\artifacts\jai_imageio.jar> into <https://qa.nest-initiative.org/job/fiji-windows-full/ws/modules\bio-formats\loci-tools>
[unjar] Expanding: <https://qa.nest-initiative.org/job/fiji-windows-full/ws/modules\bio-formats\artifacts\loci-common.jar> into <https://qa.nest-initiative.org/job/fiji-windows-full/ws/modules\bio-formats\loci-tools>
[unjar] Expanding: <https://qa.nest-initiative.org/job/fiji-windows-full/ws/modules\bio-formats\artifacts\loci_plugins.jar> into <https://qa.nest-initiative.org/job/fiji-windows-full/ws/modules\bio-formats\loci-tools>
[unjar] Expanding: <https://qa.nest-initiative.org/job/fiji-windows-full/ws/modules\bio-formats\artifacts\mdbtools-java.jar> into <https://qa.nest-initiative.org/job/fiji-windows-full/ws/modules\bio-formats\loci-tools>
[unjar] Expanding: <https://qa.nest-initiative.org/job/fiji-windows-full/ws/modules\bio-formats\artifacts\metakit.jar> into <https://qa.nest-initiative.org/job/fiji-windows-full/ws/modules\bio-formats\loci-tools>
[unjar] Expanding: <https://qa.nest-initiative.org/job/fiji-windows-full/ws/modules\bio-formats\artifacts\netcdf-4.0.jar> into <https://qa.nest-initiative.org/job/fiji-windows-full/ws/modules\bio-formats\loci-tools>
[unjar] Expanding: <https://qa.nest-initiative.org/job/fiji-windows-full/ws/modules\bio-formats\artifacts\ome-xml.jar> into <https://qa.nest-initiative.org/job/fiji-windows-full/ws/modules\bio-formats\loci-tools>
[unjar] Expanding: <https://qa.nest-initiative.org/job/fiji-windows-full/ws/modules\bio-formats\artifacts\poi-loci.jar> into <https://qa.nest-initiative.org/job/fiji-windows-full/ws/modules\bio-formats\loci-tools>
[unjar] Expanding: <https://qa.nest-initiative.org/job/fiji-windows-full/ws/modules\bio-formats\artifacts\serializer-2.7.1.jar> into <https://qa.nest-initiative.org/job/fiji-windows-full/ws/modules\bio-formats\loci-tools>
[unjar] Expanding: <https://qa.nest-initiative.org/job/fiji-windows-full/ws/modules\bio-formats\artifacts\scifio.jar> into <https://qa.nest-initiative.org/job/fiji-windows-full/ws/modules\bio-formats\loci-tools>
[unjar] Expanding: <https://qa.nest-initiative.org/job/fiji-windows-full/ws/modules\bio-formats\artifacts\xalan-2.7.1.jar> into <https://qa.nest-initiative.org/job/fiji-windows-full/ws/modules\bio-formats\loci-tools>
[unjar] Expanding: <https://qa.nest-initiative.org/job/fiji-windows-full/ws/modules\bio-formats\artifacts\slf4j-api-1.5.10.jar> into <https://qa.nest-initiative.org/job/fiji-windows-full/ws/modules\bio-formats\loci-tools>
[unjar] Expanding: <https://qa.nest-initiative.org/job/fiji-windows-full/ws/modules\bio-formats\artifacts\slf4j-log4j12-1.5.10.jar> into <https://qa.nest-initiative.org/job/fiji-windows-full/ws/modules\bio-formats\loci-tools>
[unjar] Expanding: <https://qa.nest-initiative.org/job/fiji-windows-full/ws/modules\bio-formats\artifacts\log4j-1.2.15.jar> into <https://qa.nest-initiative.org/job/fiji-windows-full/ws/modules\bio-formats\loci-tools>
[jar] Building jar: <https://qa.nest-initiative.org/job/fiji-windows-full/ws/modules\bio-formats\artifacts\loci_tools.jar>
[delete] Deleting directory <https://qa.nest-initiative.org/job/fiji-windows-full/ws/modules\bio-formats\loci-tools>
BUILD SUCCESSFUL
Total time: 55 seconds
loci_tools.jar does not exist yet
Building (fiji.build.CopyJar) loci_tools.jar <- artifacts/loci_too...
Leaving modules/bio-formats/
plugins/loci_tools.jar does not exist yet
Checking prerequisites of (fiji.build.SubFake) plugins/level_sets.jar <- src-plugin...
Building (fiji.build.SubFake) plugins/level_sets.jar <- src-plugin...
Parsing src-plugins\level_sets\pom.xml
Compiling 35 files in C:\jenkins\workspace\fiji-windows-full\src-plugins\level_sets
[-source, 1.5, -target, 1.5, -classpath, C:\jenkins\workspace\fiji-windows-full\src-plugins\level_sets\target\classes;C:\Users\jenkins\.m2\repository\com\apple\AppleJavaExtensions\1.5\AppleJavaExtensions-1.5.jar;C:\jenkins\workspace\fiji-windows-full\modules\ImageJA\target\classes;<https://qa.nest-initiative.org/job/fiji-windows-full/ws/java\win64\jdk1.6.0_24\jre\..\lib\tools.jar,> -d, C:\jenkins\workspace\fiji-windows-full\src-plugins\level_sets\target\classes, C:\jenkins\workspace\fiji-windows-full\src-plugins\level_sets\src\main\java\levelsets\algorithm\ActiveContours.java, C:\jenkins\workspace\fiji-windows-full\src-plugins\level_sets\src\main\java\levelsets\algorithm\BandElement.java, C:\jenkins\workspace\fiji-windows-full\src-plugins\level_sets\src\main\java\levelsets\algorithm\BandElementCache.java, C:\jenkins\workspace\fiji-windows-full\src-plugins\level_sets\src\main\java\levelsets\algorithm\Coordinate.java, C:\jenkins\workspace\fiji-windows-full\src-plugins\level_sets\src\main\java\levelsets\algorithm\DeferredArray3D.java, C:\jenkins\workspace\fiji-windows-full\src-plugins\level_sets\src\main\java\levelsets\algorithm\DeferredByteArray3D.java, C:\jenkins\workspace\fiji-windows-full\src-plugins\level_sets\src\main\java\levelsets\algorithm\DeferredDoubleArray3D.java, C:\jenkins\workspace\fiji-windows-full\src-plugins\level_sets\src\main\java\levelsets\algorithm\DeferredIntArray3D.java, C:\jenkins\workspace\fiji-windows-full\src-plugins\level_sets\src\main\java\levelsets\algorithm\DeferredObjectArray3D.java, C:\jenkins\workspace\fiji-windows-full\src-plugins\level_sets\src\main\java\levelsets\algorithm\DenseFieldLevelSet.java, C:\jenkins\workspace\fiji-windows-full\src-plugins\level_sets\src\main\java\levelsets\algorithm\FastMarching.java, C:\jenkins\workspace\fiji-windows-full\src-plugins\level_sets\src\main\java\levelsets\algorithm\FastMarchingBandElement.java, C:\jenkins\workspace\fiji-windows-full\src-plugins\level_sets\src\main\java\levelsets\algorithm\GeodesicActiveContour.java, C:\jenkins\workspace\fiji-windows-full\src-plugins\level_sets\src\main\java\levelsets\algorithm\LevelSetFactory.java, C:\jenkins\workspace\fiji-windows-full\src-plugins\level_sets\src\main\java\levelsets\algorithm\LevelSetImplementation.java, C:\jenkins\workspace\fiji-windows-full\src-plugins\level_sets\src\main\java\levelsets\algorithm\SparseFieldLevelSet.java, C:\jenkins\workspace\fiji-windows-full\src-plugins\level_sets\src\main\java\levelsets\algorithm\StagedAlgorithm.java, C:\jenkins\workspace\fiji-windows-full\src-plugins\level_sets\src\main\java\levelsets\filter\BufferedImageBuilder.java, C:\jenkins\workspace\fiji-windows-full\src-plugins\level_sets\src\main\java\levelsets\filter\Canny.java, C:\jenkins\workspace\fiji-windows-full\src-plugins\level_sets\src\main\java\levelsets\filter\ConvolutionFilter.java, C:\jenkins\workspace\fiji-windows-full\src-plugins\level_sets\src\main\java\levelsets\filter\Dilatation.java, C:\jenkins\workspace\fiji-windows-full\src-plugins\level_sets\src\main\java\levelsets\filter\Erosion.java, C:\jenkins\workspace\fiji-windows-full\src-plugins\level_sets\src\main\java\levelsets\filter\Filter.java, C:\jenkins\workspace\fiji-windows-full\src-plugins\level_sets\src\main\java\levelsets\filter\GreyScaleFilter.java, C:\jenkins\workspace\fiji-windows-full\src-plugins\level_sets\src\main\java\levelsets\filter\GreyValueErosion.java, C:\jenkins\workspace\fiji-windows-full\src-plugins\level_sets\src\main\java\levelsets\filter\MedianFilter.java, C:\jenkins\workspace\fiji-windows-full\src-plugins\level_sets\src\main\java\levelsets\filter\MorphologicalOperator.java, C:\jenkins\workspace\fiji-windows-full\src-plugins\level_sets\src\main\java\levelsets\filter\SimpleEdgeDetect.java, C:\jenkins\workspace\fiji-windows-full\src-plugins\level_sets\src\main\java\levelsets\filter\Sobel.java, C:\jenkins\workspace\fiji-windows-full\src-plugins\level_sets\src\main\java\levelsets\filter\SUSAN.java, C:\jenkins\workspace\fiji-windows-full\src-plugins\level_sets\src\main\java\levelsets\filter\UnsetPixel.java, C:\jenkins\workspace\fiji-windows-full\src-plugins\level_sets\src\main\java\levelsets\ij\ImageContainer.java, C:\jenkins\workspace\fiji-windows-full\src-plugins\level_sets\src\main\java\levelsets\ij\ImageProgressContainer.java, C:\jenkins\workspace\fiji-windows-full\src-plugins\level_sets\src\main\java\levelsets\ij\LevelSet.java, C:\jenkins\workspace\fiji-windows-full\src-plugins\level_sets\src\main\java\levelsets\ij\StateContainer.java]
using the class path: C:\jenkins\workspace\fiji-windows-full\src-plugins\level_sets\target\classes;C:\Users\jenkins\.m2\repository\com\apple\AppleJavaExtensions\1.5\AppleJavaExtensions-1.5.jar;C:\jenkins\workspace\fiji-windows-full\modules\ImageJA\target\classes;<https://qa.nest-initiative.org/job/fiji-windows-full/ws/java\win64\jdk1.6.0_24\jre\..\lib\tools.jar>
Note: Some input files use unchecked or unsafe operations.
Note: Recompile with -Xlint:unchecked for details.
TrakEM2_.jar is not up-to-date because of jars/ij.jar
Building (fiji.build.SubFake) plugins/TrakEM2_.jar <- jars/ij.jar ...
Building in modules/TrakEM2/
Checking prerequisites of (fiji.build.CompileJar) TrakEM2_.jar <- ini/trakem2/imagi...
TrakEM2_.jar is not up-to-date because of jars/ij.jar
Building (fiji.build.CompileJar) TrakEM2_.jar <- ini/trakem2/imagi...
Compiling .java files: javac -encoding UTF8 -d <https://qa.nest-initiative.org/job/fiji-windows-full/ws/.\modules\TrakEM2\build\TrakEM2_> -source 1.5 -target 1.5 -classpath jars/ij.jar;jars/jai_core.jar;jars/jai_codec.jar;jars/VectorString.jar;jars/postgresql.jar;jars/jcommon.jar;jars/jfreechart.jar;jars/edu_mines_jtk.jar;jars/VIB-lib.jar;plugins/VIB_.jar;jars/mpicbg.jar;plugins/loci_tools.jar;plugins/bUnwarpJ_.jar;plugins/level_sets.jar;plugins/Fiji_Plugins.jar;jars/Jama.jar;jars/imglib.jar;jars/imglib-algorithms.jar;jars/imglib-ij.jar;plugins/Simple_Neurite_Tracer.jar;plugins/3D_Viewer.jar;plugins/Lasso_and_Blow_Tool.jar;plugins/mpicbg_.jar;java/win64/jdk1.6.0_24/jre/lib/ext/j3dcore.jar;java/win64/jdk1.6.0_24/jre/lib/ext/j3dutils.jar;java/win64/jdk1.6.0_24/jre/lib/ext/vecmath.jar -Djava.ext.dirs=<https://qa.nest-initiative.org/job/fiji-windows-full/ws/java\win64\jdk1.6.0_24\jre\lib\ext;C>:\Windows\Sun\Java\lib\ext .\modules\TrakEM2\ini\trakem2\imaging\filters\LUTRed.java .\modules\TrakEM2\mpicbg\trakem2\transform\TranslationModel2D.java .\modules\TrakEM2\ini\trakem2\display\Region.java .\modules\TrakEM2\ini\trakem2\display\NonLinearTransformMode.java .\modules\TrakEM2\ini\trakem2\display\Mode.java .\modules\TrakEM2\ini\trakem2\imaging\BinaryInterpolation2D.java .\modules\TrakEM2\ini\trakem2\display\inspect\ShapeProxy.java .\modules\TrakEM2\ini\trakem2\analysis\Vertex.java .\modules\TrakEM2\ini\trakem2\utils\TaskOnEDT.java .\modules\TrakEM2\ini\trakem2\display\AffineTransformMode.java .\modules\TrakEM2\bunwarpj\trakem2\transform\CubicBSplineTransform.java .\modules\TrakEM2\ini\trakem2\imaging\ImagePreprocessor.java .\modules\TrakEM2\ini\trakem2\display\Overlay.java .\modules\TrakEM2\ini\trakem2\display\AreaContainer.java .\modules\TrakEM2\ini\trakem2\imaging\LayerStack.java .\modules\TrakEM2\ini\trakem2\persistence\StaleFiles.java .\modules\TrakEM2\ini\trakem2\display\DLabel.java .\modules\TrakEM2\mpi\fruitfly\math\Quicksortable.java .\modules\TrakEM2\ini\trakem2\display\Stack.java .\modules\TrakEM2\ini\trakem2\persistence\TMLHandler.java .\modules\TrakEM2\ini\trakem2\display\Selection.java .\modules\TrakEM2\ini\trakem2\display\Displayable.java .\modules\TrakEM2\ini\trakem2\tree\DNDTree.java .\modules\TrakEM2\ini\trakem2\persistence\DownsamplerMipMaps.java .\modules\TrakEM2\ini\trakem2\persistence\ProjectTiler.java .\modules\TrakEM2\ini\trakem2\display\graphics\MultiplyARGBComposite.java .\modules\TrakEM2\ini\trakem2\display\VectorData.java .\modules\TrakEM2\ini\trakem2\utils\StopWatch.java .\modules\TrakEM2\ini\trakem2\utils\FieldMapView.java .\modules\TrakEM2\ini\trakem2\imaging\Blending.java .\modules\TrakEM2\ini\trakem2\display\Bucket.java .\modules\TrakEM2\ini\trakem2\utils\ReconstructArea.java .\modules\TrakEM2\ini\trakem2\persistence\FSLoader.java .\modules\TrakEM2\ini\trakem2\imaging\LazyVirtualStack.java .\modules\TrakEM2\mpi\fruitfly\math\datastructures\FloatArray2D.java .\modules\TrakEM2\ini\trakem2\tree\TrakEM2MLParser.java .\modules\TrakEM2\ini\trakem2\tree\ProjectThing.java .\modules\TrakEM2\ini\trakem2\display\MipMapImage.java .\modules\TrakEM2\mpicbg\trakem2\align\GenericAffineTile2D.java .\modules\TrakEM2\ini\trakem2\io\ImageFileFilter.java .\modules\TrakEM2\ini\trakem2\imaging\FloatProcessorT2.java .\modules\TrakEM2\ini\trakem2\display\RollingPanel.java .\modules\TrakEM2\ini\trakem2\New_Project.java .\modules\TrakEM2\ini\trakem2\tree\RenameThingStep.java .\modules\TrakEM2\ini\trakem2\io\CoordinateTransformXML.java .\modules\TrakEM2\ini\trakem2\utils\OptionPanel.java .\modules\TrakEM2\ini\trakem2\persistence\Loader.java .\modules\TrakEM2\ini\trakem2\imaging\filters\LUTCyan.java .\modules\TrakEM2\ini\trakem2\display\Bucketable.java .\modules\TrakEM2\ini\trakem2\imaging\filters\LUTBlue.java .\modules\TrakEM2\ini\trakem2\utils\TypedHashMap.java .\modules\TrakEM2\ini\trakem2\display\VectorDataTransform.java 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.\modules\TrakEM2\ini\trakem2\tree\ProjectTree.java .\modules\TrakEM2\ini\trakem2\display\ImageData.java .\modules\TrakEM2\ini\trakem2\utils\M.java .\modules\TrakEM2\ini\trakem2\imaging\filters\SubtractBackground.java .\modules\TrakEM2\mpi\fruitfly\general\MultiThreading.java .\modules\TrakEM2\ini\trakem2\display\LayerSet.java .\modules\TrakEM2\ini\trakem2\display\FakeImageWindow.java .\modules\TrakEM2\ini\trakem2\display\DisplayableChooser.java .\modules\TrakEM2\ini\trakem2\imaging\filters\NormalizeLocalContrast.java .\modules\TrakEM2\mpicbg\trakem2\align\Align.java .\modules\TrakEM2\ini\trakem2\display\DisplayCanvas.java .\modules\TrakEM2\ini\trakem2\imaging\P.java .\modules\TrakEM2\ini\trakem2\display\d3d\ControlClickBehavior.java .\modules\TrakEM2\ini\trakem2\utils\IJError.java .\modules\TrakEM2\ini\trakem2\tree\AbstractTreeTransferHandler.java .\modules\TrakEM2\mpicbg\trakem2\transform\InvertibleCoordinateTransform.java .\modules\TrakEM2\mpicbg\trakem2\align\SimilarityTile2D.java .\modules\TrakEM2\mpicbg\trakem2\transform\AffineModel2D.java .\modules\TrakEM2\ini\trakem2\display\Node.java .\modules\TrakEM2\ini\trakem2\display\DisplayablePanel.java .\modules\TrakEM2\ini\trakem2\display\Tree.java .\modules\TrakEM2\ini\trakem2\imaging\filters\RankFilter.java .\modules\TrakEM2\ini\trakem2\display\LayerPanel.java .\modules\TrakEM2\ini\trakem2\display\Ball.java .\modules\TrakEM2\mpicbg\trakem2\transform\DTD.java .\modules\TrakEM2\ini\trakem2\utils\Search.java .\modules\TrakEM2\ini\trakem2\display\graphics\SubtractARGBComposite.java .\modules\TrakEM2\ini\trakem2\tree\LayerThing.java .\modules\TrakEM2\ini\trakem2\tree\DTDParser.java .\modules\TrakEM2\ini\trakem2\utils\ProjectToolbar.java .\modules\TrakEM2\ini\trakem2\display\graphics\ColorYCbCrComposite.java .\modules\TrakEM2\mpicbg\trakem2\align\Util.java .\modules\TrakEM2\ini\trakem2\display\inspect\InspectPatchTrianglesMode.java .\modules\TrakEM2\mpicbg\trakem2\align\RegularizedAffineLayerAlignment.java .\modules\TrakEM2\ini\trakem2\display\SnapshotPanel.java .\modules\TrakEM2\ini\trakem2\utils\Filter.java .\modules\TrakEM2\ini\trakem2\imaging\filters\EqualizeHistogram.java .\modules\TrakEM2\ini\trakem2\imaging\filters\EnhanceContrast.java .\modules\TrakEM2\ini\trakem2\display\Taggable.java .\modules\TrakEM2\ini\trakem2\utils\Dispatcher.java .\modules\TrakEM2\ini\trakem2\io\AmiraImporter.java .\modules\TrakEM2\ini\trakem2\display\Channel.java .\modules\TrakEM2\ini\trakem2\utils\AreaUtils.java .\modules\TrakEM2\ini\trakem2\display\paint\USHORTPaint.java .\modules\TrakEM2\ini\trakem2\parallel\Process.java .\modules\TrakEM2\ini\trakem2\imaging\filters\IFilter.java .\modules\TrakEM2\ini\trakem2\utils\DNDInsertImage.java .\modules\TrakEM2\mpicbg\trakem2\util\Triple.java .\modules\TrakEM2\mpi\fruitfly\math\datastructures\FloatArray4D.java .\modules\TrakEM2\ini\trakem2\display\Display.java .\modules\TrakEM2\ini\trakem2\utils\Montage.java .\modules\TrakEM2\ini\trakem2\imaging\filters\DefaultMinAndMax.java .\modules\TrakEM2\mpicbg\trakem2\transform\CoordinateTransform.java .\modules\TrakEM2\ini\trakem2\utils\IntegerField.java .\modules\TrakEM2\ini\trakem2\persistence\IntegralImageMipMaps.java .\modules\TrakEM2\ini\trakem2\utils\Utils.java .\modules\TrakEM2\ini\trakem2\utils\BigBrother.java .\modules\TrakEM2\ini\trakem2\imaging\filters\LUTMagenta.java .\modules\TrakEM2\mpicbg\trakem2\transform\ExportUnsignedShort.java .\modules\TrakEM2\mpicbg\trakem2\align\AbstractAffineTile2D.java .\modules\TrakEM2\mpicbg\trakem2\transform\MovingLeastSquaresTransform2.java .\modules\TrakEM2\ini\trakem2\utils\Worker.java .\modules\TrakEM2\mpicbg\trakem2\align\AlignLayersTask.java .\modules\TrakEM2\ini\trakem2\Open_DB_Project.java .\modules\TrakEM2\ini\trakem2\imaging\ContrastEnhancerWrapper.java .\modules\TrakEM2\ini\trakem2\io\LoggingInputStream.java .\modules\TrakEM2\ini\trakem2\persistence\Cache.java .\modules\TrakEM2\ini\trakem2\io\XMLFileFilter.java .\modules\TrakEM2\lenscorrection\DistortionCorrectionTask.java .\modules\TrakEM2\ini\trakem2\display\YesNoDialog.java .\modules\TrakEM2\ini\trakem2\display\graphics\GraphicsSource.java .\modules\TrakEM2\mpicbg\trakem2\align\ElasticLayerAlignment.java .\modules\TrakEM2\ini\trakem2\display\graphics\DefaultGraphicsSource.java .\modules\TrakEM2\ini\trakem2\display\Display3D.java .\modules\TrakEM2\ini\trakem2\display\d3d\Display3DGUI.java .\modules\TrakEM2\ini\trakem2\New_DB_Project.java .\modules\TrakEM2\mpicbg\trakem2\transform\SimilarityModel2D.java .\modules\TrakEM2\ini\trakem2\persistence\XMLOptions.java .\modules\TrakEM2\ini\trakem2\imaging\filters\LUTCustom.java .\modules\TrakEM2\ini\trakem2\display\AreaList.java .\modules\TrakEM2\mpicbg\trakem2\align\AlignTask.java .\modules\TrakEM2\lenscorrection\NonLinearTransform.java .\modules\TrakEM2\ini\trakem2\imaging\filters\LUTGreen.java .\modules\TrakEM2\mpicbg\trakem2\align\TranslationTile2D.java .\modules\TrakEM2\ini\trakem2\tree\LayerTree.java .\modules\TrakEM2\ini\trakem2\parallel\CountingTaskFactory.java .\modules\TrakEM2\ini\trakem2\Project.java .\modules\TrakEM2\ini\trakem2\utils\Vector3.java .\modules\TrakEM2\ini\trakem2\display\Tag.java .\modules\TrakEM2\lenscorrection\PolynomialModel2D.java .\modules\TrakEM2\mpi\fruitfly\general\ArrayConverter.java .\modules\TrakEM2\mpicbg\trakem2\transform\CoordinateTransformList.java .\modules\TrakEM2\mpicbg\trakem2\transform\AffineModel3D.java .\modules\TrakEM2\ini\trakem2\display\TransformationStep.java .\modules\TrakEM2\ini\trakem2\io\NeuroML.java .\modules\TrakEM2\ini\trakem2\display\paint\USHORTPaintContext.java .\modules\TrakEM2\ini\trakem2\utils\RedPhone.java .\modules\TrakEM2\ini\trakem2\display\Coordinate.java .\modules\TrakEM2\ini\trakem2\persistence\ImageBytes.java .\modules\TrakEM2\ini\trakem2\imaging\PatchStack.java .\modules\TrakEM2\ini\trakem2\display\ZDisplayable.java .\modules\TrakEM2\ini\trakem2\tree\Thing.java .\modules\TrakEM2\ini\trakem2\persistence\FilePathRepair.java .\modules\TrakEM2\ini\trakem2\display\AbstractOffscreenThread.java .\modules\TrakEM2\mpicbg\trakem2\align\ElasticMontage.java .\modules\TrakEM2\mpicbg\trakem2\transform\TransformMesh.java .\modules\TrakEM2\ini\trakem2\imaging\filters\CLAHE.java .\modules\TrakEM2\ini\trakem2\io\RagMipMaps.java .\modules\TrakEM2\ini\trakem2\display\graphics\TestGraphicsSource.java .\modules\TrakEM2\mpi\fruitfly\math\General.java .\modules\TrakEM2\mpi\fruitfly\general\ImageArrayConverter.java .\modules\TrakEM2\ini\trakem2\display\FreeHandProfile.java .\modules\TrakEM2\mpicbg\trakem2\align\AbstractElasticAlignment.java .\modules\TrakEM2\mpicbg\trakem2\transform\RigidModel2D.java .\modules\TrakEM2\ini\trakem2\persistence\DBObject.java .\modules\TrakEM2\mpicbg\trakem2\align\RigidTile2D.java .\modules\TrakEM2\ini\trakem2\display\Polyline.java .\modules\TrakEM2\lenscorrection\Distortion_Correction.java .\modules\TrakEM2\ini\trakem2\display\Patch.java .\modules\TrakEM2\ini\trakem2\imaging\StitchingTEM.java .\modules\TrakEM2\ini\trakem2\imaging\filters\LUTYellow.java .\modules\TrakEM2\ini\trakem2\tree\TemplateTree.java .\modules\TrakEM2\ini\trakem2\imaging\filters\Normalize.java .\modules\TrakEM2\ini\trakem2\display\ImageJCommandListener.java .\modules\TrakEM2\mpi\fruitfly\math\datastructures\FloatArray3D.java .\modules\TrakEM2\ini\trakem2\display\DoStep.java .\modules\TrakEM2\mpicbg\trakem2\transform\MovingLeastSquaresTransform.java .\modules\TrakEM2\ini\trakem2\Open_Project.java .\modules\TrakEM2\ini\trakem2\imaging\filters\FilterEditor.java .\modules\TrakEM2\ini\trakem2\display\Profile.java .\modules\TrakEM2\mpicbg\trakem2\util\Downsampler.java .\modules\TrakEM2\ini\trakem2\utils\Merger.java .\modules\TrakEM2\ini\trakem2\display\DisplayNavigator.java .\modules\TrakEM2\ini\trakem2\tree\DefaultTreeTransferHandler.java .\modules\TrakEM2\ini\trakem2\ControlWindow.java .\modules\TrakEM2\mpi\fruitfly\registration\CrossCorrelation2D.java .\modules\TrakEM2\ini\trakem2\analysis\Graph.java .\modules\TrakEM2\ini\trakem2\persistence\DBLoader.java .\modules\TrakEM2\ini\trakem2\tree\TitledThing.java .\modules\TrakEM2\ini\trakem2\utils\CachingThread.java .\modules\TrakEM2\ini\trakem2\utils\Lock.java .\modules\TrakEM2\mpicbg\trakem2\align\TileConfiguration.java .\modules\TrakEM2\ini\trakem2\display\DefaultMode.java .\modules\TrakEM2\mpi\fruitfly\math\datastructures\FloatArray.java .\modules\TrakEM2\ini\trakem2\imaging\filters\Invert.java .\modules\TrakEM2\ini\trakem2\display\ContrastAdjustmentMode.java .\modules\TrakEM2\ini\trakem2\plugin\TPlugIn.java .\modules\TrakEM2\ini\trakem2\display\graphics\AddARGBComposite.java .\modules\TrakEM2\ini\trakem2\imaging\filters\ResetMinAndMax.java .\modules\TrakEM2\ini\trakem2\imaging\PhaseCorrelationCalculator.java .\modules\TrakEM2\ini\trakem2\utils\Render.java .\modules\TrakEM2\mpicbg\trakem2\transform\InvertibleCoordinateTransformList.java .\modules\TrakEM2\ini\trakem2\imaging\filters\LUTOrange.java .\modules\TrakEM2\ini\trakem2\display\Connector.java .\modules\TrakEM2\ini\trakem2\utils\History.java .\modules\TrakEM2\ini\trakem2\utils\Bureaucrat.java .\modules\TrakEM2\mpicbg\trakem2\transform\TransformMeshMapping.java .\modules\TrakEM2\ini\trakem2\utils\Operation.java
.\modules\TrakEM2\ini\trakem2\display\Patch.java:102: package mpicbg.imglib.image.display.imagej does not exist
import mpicbg.imglib.image.display.imagej.ImageJFunctions;
^
.\modules\TrakEM2\ini\trakem2\imaging\StitchingTEM.java:44: package mpicbg.imglib.algorithm.fft does not exist
import mpicbg.imglib.algorithm.fft.PhaseCorrelationPeak;
^
.\modules\TrakEM2\ini\trakem2\utils\AreaUtils.java:38: package mpicbg.imglib.image.display.imagej does not exist
import mpicbg.imglib.image.display.imagej.ImageJFunctions;
^
.\modules\TrakEM2\ini\trakem2\persistence\IntegralImageMipMaps.java:14: package mpicbg.imglib.algorithm.integral does not exist
import mpicbg.imglib.algorithm.integral.IntegralImage;
^
.\modules\TrakEM2\ini\trakem2\persistence\IntegralImageMipMaps.java:15: package mpicbg.imglib.algorithm.integral does not exist
import mpicbg.imglib.algorithm.integral.ScaleAreaAveraging2d;
^
.\modules\TrakEM2\ini\trakem2\persistence\IntegralImageMipMaps.java:250: cannot find symbol
symbol : class ScaleAreaAveraging2d
location: class ini.trakem2.persistence.IntegralImageMipMaps
static private final ScaleAreaAveraging2d<LongType, UnsignedByteType> saa(final byte[] b, final int[] dims) {
^
.\modules\TrakEM2\ini\trakem2\imaging\PhaseCorrelationCalculator.java:4: package mpicbg.imglib.algorithm.fft does not exist
import mpicbg.imglib.algorithm.fft.PhaseCorrelation;
^
.\modules\TrakEM2\ini\trakem2\imaging\PhaseCorrelationCalculator.java:5: package mpicbg.imglib.algorithm.fft does not exist
import mpicbg.imglib.algorithm.fft.PhaseCorrelationPeak;
^
.\modules\TrakEM2\ini\trakem2\imaging\PhaseCorrelationCalculator.java:6: cannot find symbol
symbol : class ImagePlusAdapter
location: package mpicbg.imglib.image
import mpicbg.imglib.image.ImagePlusAdapter;
^
.\modules\TrakEM2\ini\trakem2\imaging\PhaseCorrelationCalculator.java:12: cannot find symbol
symbol : class PhaseCorrelationPeak
location: class ini.trakem2.imaging.PhaseCorrelationCalculator
final PhaseCorrelationPeak peak;
^
.\modules\TrakEM2\ini\trakem2\imaging\PhaseCorrelationCalculator.java:30: cannot find symbol
symbol : class PhaseCorrelationPeak
location: class ini.trakem2.imaging.PhaseCorrelationCalculator
public PhaseCorrelationPeak getPeak()
^
.\modules\TrakEM2\ini\trakem2\display\Patch.java:1851: cannot find symbol
symbol : variable ImageJFunctions
location: class ini.trakem2.display.Patch
ByteProcessor rmask = (ByteProcessor) ImageJFunctions.copyToImagePlus(shapeListImage, ImagePlus.GRAY8).getProcessor();
^
.\modules\TrakEM2\ini\trakem2\imaging\StitchingTEM.java:548: cannot find symbol
symbol : class PhaseCorrelationPeak
location: class ini.trakem2.imaging.StitchingTEM
PhaseCorrelationPeak peak = t.getPeak();
^
.\modules\TrakEM2\ini\trakem2\utils\AreaUtils.java:499: cannot find symbol
symbol: variable ImageJFunctions
ImagePlus imp = ImageJFunctions.copyToImagePlus(imb, ImagePlus.GRAY8);
^
.\modules\TrakEM2\ini\trakem2\persistence\IntegralImageMipMaps.java:143: cannot find symbol
symbol : class ScaleAreaAveraging2d
location: class ini.trakem2.persistence.IntegralImageMipMaps
final ScaleAreaAveraging2d<LongType, UnsignedByteType> saai, saam;
^
.\modules\TrakEM2\ini\trakem2\persistence\IntegralImageMipMaps.java:146: cannot find symbol
symbol : class IntegralImage
location: class ini.trakem2.persistence.IntegralImageMipMaps
final IntegralImage<UnsignedByteType, LongType> oa =
^
.\modules\TrakEM2\ini\trakem2\persistence\IntegralImageMipMaps.java:147: cannot find symbol
symbol : class IntegralImage
location: class ini.trakem2.persistence.IntegralImageMipMaps
new IntegralImage<UnsignedByteType, LongType>(
^
.\modules\TrakEM2\ini\trakem2\persistence\IntegralImageMipMaps.java:151: cannot find symbol
symbol : class ScaleAreaAveraging2d
location: class ini.trakem2.persistence.IntegralImageMipMaps
saai = new ScaleAreaAveraging2d<LongType, UnsignedByteType>(
^
.\modules\TrakEM2\ini\trakem2\persistence\IntegralImageMipMaps.java:156: cannot find symbol
symbol : class IntegralImage
location: class ini.trakem2.persistence.IntegralImageMipMaps
final IntegralImage<UnsignedByteType, LongType> ma = new IntegralImage<UnsignedByteType, LongType>(
^
.\modules\TrakEM2\ini\trakem2\persistence\IntegralImageMipMaps.java:156: cannot find symbol
symbol : class IntegralImage
location: class ini.trakem2.persistence.IntegralImageMipMaps
final IntegralImage<UnsignedByteType, LongType> ma = new IntegralImage<UnsignedByteType, LongType>(
^
.\modules\TrakEM2\ini\trakem2\persistence\IntegralImageMipMaps.java:160: cannot find symbol
symbol : class ScaleAreaAveraging2d
location: class ini.trakem2.persistence.IntegralImageMipMaps
saam = new ScaleAreaAveraging2d<LongType, UnsignedByteType>(ma.getResult(), new UnsignedByteType(), dims);
^
.\modules\TrakEM2\ini\trakem2\persistence\IntegralImageMipMaps.java:251: cannot find symbol
symbol : class IntegralImage
location: class ini.trakem2.persistence.IntegralImageMipMaps
final IntegralImage<UnsignedByteType, LongType> ii =
^
.\modules\TrakEM2\ini\trakem2\persistence\IntegralImageMipMaps.java:252: cannot find symbol
symbol : class IntegralImage
location: class ini.trakem2.persistence.IntegralImageMipMaps
new IntegralImage<UnsignedByteType, LongType>(
^
.\modules\TrakEM2\ini\trakem2\persistence\IntegralImageMipMaps.java:256: cannot find symbol
symbol : class ScaleAreaAveraging2d
location: class ini.trakem2.persistence.IntegralImageMipMaps
return new ScaleAreaAveraging2d<LongType, UnsignedByteType>(
^
.\modules\TrakEM2\ini\trakem2\persistence\IntegralImageMipMaps.java:268: cannot find symbol
symbol : class ScaleAreaAveraging2d
location: class ini.trakem2.persistence.IntegralImageMipMaps
final ScaleAreaAveraging2d<LongType, UnsignedByteType> saar, saag, saab, saam;
^
.\modules\TrakEM2\ini\trakem2\imaging\PhaseCorrelationCalculator.java:16: cannot find symbol
symbol : variable ImagePlusAdapter
location: class ini.trakem2.imaging.PhaseCorrelationCalculator
Image<T> img1 = ImagePlusAdapter.wrap( imp1 );
^
.\modules\TrakEM2\ini\trakem2\imaging\PhaseCorrelationCalculator.java:17: cannot find symbol
symbol : variable ImagePlusAdapter
location: class ini.trakem2.imaging.PhaseCorrelationCalculator
Image<S> img2 = ImagePlusAdapter.wrap( imp2 );
^
.\modules\TrakEM2\ini\trakem2\imaging\PhaseCorrelationCalculator.java:19: cannot find symbol
symbol : class PhaseCorrelation
location: class ini.trakem2.imaging.PhaseCorrelationCalculator
PhaseCorrelation<T, S> phase = new PhaseCorrelation<T, S>( img1, img2 );
^
.\modules\TrakEM2\ini\trakem2\imaging\PhaseCorrelationCalculator.java:19: cannot find symbol
symbol : class PhaseCorrelation
location: class ini.trakem2.imaging.PhaseCorrelationCalculator
PhaseCorrelation<T, S> phase = new PhaseCorrelation<T, S>( img1, img2 );
^
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.
29 errors
Fake failed: Compile error: 1
in rule (fiji.build.CompileJar) TrakEM2_.jar <- ini/trakem2/imagi...
in rule (fiji.build.SubFake) plugins/TrakEM2_.jar <- jars/ij.jar ...
in rule (fiji.build.All) all <- ImageJ fiji jars/VectorString.jar...
Build step 'Execute shell' marked build as failure
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