[ImageJ-builds] Build failed in Jenkins: fiji-full #658

[Jenkins Daemon]

See <https://qa.nest-initiative.org/job/fiji-full/658/changes>

Changes:

[Johannes Schindelin] Make Fiji-daily pass again

------------------------------------------
[...truncated 16 lines...]
Synchronizing submodule url for 'java/win64'
Synchronizing submodule url for 'modules/AutoComplete'
Synchronizing submodule url for 'modules/ImageJA'
Synchronizing submodule url for 'modules/RSyntaxTextArea'
Synchronizing submodule url for 'modules/Retrotranslator'
Synchronizing submodule url for 'modules/TrakEM2'
Synchronizing submodule url for 'modules/batik'
Synchronizing submodule url for 'modules/clojure'
Synchronizing submodule url for 'modules/commons-math'
Synchronizing submodule url for 'modules/ij-plugins'
Synchronizing submodule url for 'modules/image5d'
Synchronizing submodule url for 'modules/imagej2'
Synchronizing submodule url for 'modules/imglib'
Synchronizing submodule url for 'modules/javassist'
Synchronizing submodule url for 'modules/jsch'
Synchronizing submodule url for 'modules/junit'
Synchronizing submodule url for 'modules/jython'
Synchronizing submodule url for 'modules/mpicbg'
Synchronizing submodule url for 'modules/tcljava'
Synchronizing submodule url for 'modules/weka'
++ grep -v java/
++ sed -n 's/^160000 .\{40\} 0.//p'
++ git ls-files --stage
+ SUBMODULES='modules/AutoComplete
modules/ImageJA
modules/RSyntaxTextArea
modules/Retrotranslator
modules/TrakEM2
modules/batik
modules/clojure
modules/commons-math
modules/ij-plugins
modules/image5d
modules/imagej2
modules/imglib
modules/javassist
modules/jsch
modules/junit
modules/jython
modules/mpicbg
modules/tcljava
modules/weka'
+ for i in '$SUBMODULES'
+ git submodule update --init -- modules/AutoComplete
+ for i in '$SUBMODULES'
+ git submodule update --init -- modules/ImageJA
+ for i in '$SUBMODULES'
+ git submodule update --init -- modules/RSyntaxTextArea
+ for i in '$SUBMODULES'
+ git submodule update --init -- modules/Retrotranslator
+ for i in '$SUBMODULES'
+ git submodule update --init -- modules/TrakEM2
+ for i in '$SUBMODULES'
+ git submodule update --init -- modules/batik
+ for i in '$SUBMODULES'
+ git submodule update --init -- modules/clojure
+ for i in '$SUBMODULES'
+ git submodule update --init -- modules/commons-math
+ for i in '$SUBMODULES'
+ git submodule update --init -- modules/ij-plugins
+ for i in '$SUBMODULES'
+ git submodule update --init -- modules/image5d
+ for i in '$SUBMODULES'
+ git submodule update --init -- modules/imagej2
+ for i in '$SUBMODULES'
+ git submodule update --init -- modules/imglib
+ for i in '$SUBMODULES'
+ git submodule update --init -- modules/javassist
+ for i in '$SUBMODULES'
+ git submodule update --init -- modules/jsch
+ for i in '$SUBMODULES'
+ git submodule update --init -- modules/junit
+ for i in '$SUBMODULES'
+ git submodule update --init -- modules/jython
+ for i in '$SUBMODULES'
+ git submodule update --init -- modules/mpicbg
+ for i in '$SUBMODULES'
+ git submodule update --init -- modules/tcljava
+ for i in '$SUBMODULES'
+ git submodule update --init -- modules/weka
+ git submodule foreach 'git clean -dfx'
Entering 'java/linux'
Entering 'modules/AutoComplete'
Entering 'modules/ImageJA'
Entering 'modules/RSyntaxTextArea'
Entering 'modules/Retrotranslator'
Entering 'modules/TrakEM2'
Entering 'modules/batik'
Entering 'modules/clojure'
Entering 'modules/commons-math'
Entering 'modules/ij-plugins'
Entering 'modules/image5d'
Entering 'modules/imagej2'
Entering 'modules/imglib'
Entering 'modules/javassist'
Entering 'modules/jsch'
Entering 'modules/junit'
Entering 'modules/jython'
Entering 'modules/mpicbg'
Entering 'modules/tcljava'
Entering 'modules/weka'
+ ./Build.sh -Dminimaven.updateinterval=1 -- verbose=true
Cloning into '<https://qa.nest-initiative.org/job/fiji-full/ws/modules/scijava-common'...>
Downloading sc.fiji:javac:2.0.0-SNAPSHOT
Downloading org.scijava:scijava-common:1.0.0-SNAPSHOT
Downloading net.imagej:ij-core:2.0.0-SNAPSHOT
Downloading net.imagej:ij-minimaven:2.0.0-SNAPSHOT
Downloading net.imagej:ij-updater-ssh:2.0.0-SNAPSHOT
Downloading net.imagej:ij-ui-swing-updater:2.0.0-SNAPSHOT
Looking at children of pom-fiji
Looking at children of pom-fiji-plugins
Compiling 26 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/fiji-lib>
Note: Some input files use or override a deprecated API.
Note: Recompile with -Xlint:deprecation for details.
Note: Some input files use unchecked or unsafe operations.
Note: Recompile with -Xlint:unchecked for details.
Compiling 22 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/pal-optimization>
Compiling 190 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/VIB-lib>
Note: Some input files use or override a deprecated API.
Note: Recompile with -Xlint:deprecation for details.
Note: Some input files use unchecked or unsafe operations.
Note: Recompile with -Xlint:unchecked for details.
Compiling 121 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/3D_Viewer>
Note: Some input files use or override a deprecated API.
Note: Recompile with -Xlint:deprecation for details.
Note: Some input files use unchecked or unsafe operations.
Note: Recompile with -Xlint:unchecked for details.
Compiling 35 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/level_sets>
Note: Some input files use unchecked or unsafe operations.
Note: Recompile with -Xlint:unchecked for details.
Compiling 1 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/3D_Blob_Segmentation>
Note: <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/3D_Blob_Segmentation/src/main/java/ij3d/segmentation/Blob_Segmentation_in_3D.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/3D_Blob_Segmentation/src/main/java/ij3d/segmentation/Blob_Segmentation_in_3D.java> uses unchecked or unsafe operations.
Note: Recompile with -Xlint:unchecked for details.
Compiling 4 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/3D_Objects_Counter>
Note: <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/3D_Objects_Counter/src/main/java/Utilities/Counter3D.java> uses or overrides a deprecated API.
Note: Recompile with -Xlint:deprecation for details.
Compiling 3 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Algorithm_Launcher>
Note: <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Algorithm_Launcher/src/main/java/AlgorithmInfo.java> uses unchecked or unsafe operations.
Note: Recompile with -Xlint:unchecked for details.
Compiling 6 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/AnalyzeSkeleton_>
Note: <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/AnalyzeSkeleton_/src/main/java/skeleton_analysis/AnalyzeSkeleton_.java> uses unchecked or unsafe operations.
Note: Recompile with -Xlint:unchecked for details.
Compiling 2 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Analyze_Reader_Writer>
Compiling 1 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Anisotropic_Diffusion_2D>
Compiling 3 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Arrow_>
Compiling 2 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Auto_Threshold>
Compiling 8 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/BalloonSegmentation_>
Note: <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/BalloonSegmentation_/src/main/java/BalloonSegmentation_.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.
Warning: <https://qa.nest-initiative.org/job/fiji-full/ws/java/linux/jdk1.6.0_24/jre/../lib/tools.jar> overrides com.sun>tools

Warning: <https://qa.nest-initiative.org/job/fiji-full/ws/java/linux/jdk1.6.0_24/jre/../lib/tools.jar> overrides com.sun>tools

Compiling 26 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/fiji-compat>
Note: Some input files use or override a deprecated API.
Note: Recompile with -Xlint:deprecation for details.
Note: Some input files use unchecked or unsafe operations.
Note: Recompile with -Xlint:unchecked for details.
Compiling 3 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/fiji-scripting>
Note: Some input files use unchecked or unsafe operations.
Note: Recompile with -Xlint:unchecked for details.
Compiling 2 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/BeanShell_Interpreter>
Compiling 3 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Bug_Submitter>
Compiling 9 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/CLI_>
Note: Some input files use or override a deprecated API.
Note: Recompile with -Xlint:deprecation for details.
Note: Some input files use unchecked or unsafe operations.
Note: Recompile with -Xlint:unchecked for details.
Compiling 1 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/CPU_Meter>
Compiling 1 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Calculator_Plus>
Compiling 2 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Clojure_Interpreter>
Note: <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Clojure_Interpreter/src/main/java/Clojure/Clojure_Interpreter.java> uses unchecked or unsafe operations.
Note: Recompile with -Xlint:unchecked for details.
Compiling 42 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Colocalisation_Analysis>
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/Colocalisation_Analysis/src/main/java/results/SingleWindowDisplay.java> uses unchecked or unsafe operations.
Note: Recompile with -Xlint:unchecked for details.
Compiling 1 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Color_Histogram>
Note: <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Color_Histogram/src/main/java/ColorHistogram_.java> uses or overrides a deprecated API.
Note: Recompile with -Xlint:deprecation for details.
Compiling 4 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Color_Inspector_3D>
Note: <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Color_Inspector_3D/src/main/java/Color_Inspector_3D.java> uses or overrides a deprecated API.
Note: Recompile with -Xlint:deprecation for details.
Compiling 1 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Colour_Deconvolution>
Compiling 8 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/CorrectBleach_>
Compiling 33 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Fiji_Plugins>
Note: <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Fiji_Plugins/src/main/java/Retinex_.java> uses or overrides a deprecated API.
Note: Recompile with -Xlint:deprecation for details.
Note: Some input files use unchecked or unsafe operations.
Note: Recompile with -Xlint:unchecked for details.
Compiling 16 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/SPIM_Opener>
Note: <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/SPIM_Opener/src/main/java/spimopener/GaussianStackFocuser.java> uses or overrides a deprecated API.
Note: Recompile with -Xlint:deprecation for details.
Compiling 146 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/SPIM_Registration>
Note: Some input files use or override a deprecated API.
Note: Recompile with -Xlint:deprecation for details.
Note: Some input files use unchecked or unsafe operations.
Note: Recompile with -Xlint:unchecked for details.
Compiling 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.
Note: Recompile with -Xlint:deprecation for details.
Note: Some input files use unchecked or unsafe operations.
Note: Recompile with -Xlint:unchecked for details.
Compiling 16 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Descriptor_based_registration>
<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Descriptor_based_registration/src/main/java/process/Particle.java>:53: getID() in process.Particle cannot override getID() in mpicbg.models.Point; attempting to use incompatible return type
found   : int
required: long
	public int getID() { return id; }	
	           ^
Note: Some input files use unchecked or unsafe operations.
Note: Recompile with -Xlint:unchecked for details.
1 error
Exception in thread "main" imagej.build.minimaven.JavaCompiler$CompileError: Compile error: 1
	at imagej.build.minimaven.JavaCompiler.call(JavaCompiler.java:84)
	at imagej.build.minimaven.MavenProject.build(MavenProject.java:443)
	at imagej.build.minimaven.MavenProject.buildAndInstall(MavenProject.java:331)
	at imagej.build.minimaven.MavenProject.buildAndInstall(MavenProject.java:326)
	at imagej.build.minimaven.MavenProject.buildAndInstall(MavenProject.java:326)
	at imagej.build.minimaven.MavenProject.buildAndInstall(MavenProject.java:288)
	at imagej.build.MiniMaven.main(MiniMaven.java:133)
Looking at children of pom-fiji
Looking at children of pom-fiji-plugins
Warning: <https://qa.nest-initiative.org/job/fiji-full/ws/java/linux/jdk1.6.0_24/jre/../lib/tools.jar> overrides com.sun>tools

Warning: <https://qa.nest-initiative.org/job/fiji-full/ws/java/linux/jdk1.6.0_24/jre/../lib/tools.jar> overrides com.sun>tools

Compiling 16 files in <https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Descriptor_based_registration>
<https://qa.nest-initiative.org/job/fiji-full/ws/src-plugins/Descriptor_based_registration/src/main/java/process/Particle.java>:53: getID() in process.Particle cannot override getID() in mpicbg.models.Point; attempting to use incompatible return type
found   : int
required: long
	public int getID() { return id; }	
	           ^
Note: Some input files use unchecked or unsafe operations.
Note: Recompile with -Xlint:unchecked for details.
1 error
Exception in thread "main" imagej.build.minimaven.JavaCompiler$CompileError: Compile error: 1
	at imagej.build.minimaven.JavaCompiler.call(JavaCompiler.java:84)
	at imagej.build.minimaven.MavenProject.build(MavenProject.java:443)
	at imagej.build.minimaven.MavenProject.buildAndInstall(MavenProject.java:331)
	at imagej.build.minimaven.MavenProject.buildAndInstall(MavenProject.java:326)
	at imagej.build.minimaven.MavenProject.buildAndInstall(MavenProject.java:326)
	at imagej.build.minimaven.MavenProject.buildAndInstall(MavenProject.java:288)
	at imagej.build.MiniMaven.main(MiniMaven.java:133)
Build step 'Execute shell' marked build as failure