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pam66 / steerable3D

An ImageJ plugin steerable filter based on 3D Gaussian derivatives
GNU General Public License v3.0
3 stars 1 forks source link

error #2

Closed j01993 closed 3 years ago

j01993 commented 3 years ago

Hi. I want to try out your plugin to my data. So I copied the java file to '/home/Fiji/plugins/' folder. However, when I try to run, I get the following error.

Steerable3D not up-to-date because 1 source files are not up-to-date (/tmp/java3260347104857933114/src/main/java/eu/marbilab/imagej/Steerable3D.java) Compiling 1 file in /tmp/java3260347104857933114 [-classpath, /tmp/java3260347104857933114/target/classes:/home/ju/Fiji.app/plugins/3D_Blob_Segmentation-3.0.1.jar:/home/ju/Fiji.app/plugins/3D_Objects_Counter-2.0.1.jar:/home/ju/Fiji.app/plugins/3D_Viewer-4.0.3.jar:/home/ju/Fiji.app/plugins/ANKAphase_21.jar:/home/ju/Fiji.app/jars/AbsoluteLayout-RELEASE802.jar:/home/ju/Fiji.app/plugins/AnalyzeSkeleton-3.4.2.jar:/home/ju/Fiji.app/plugins/Angio_Tool-0.5.1.jar:/home/ju/Fiji.app/plugins/Anisotropic_Diffusion_2D-2.0.1.jar:/home/ju/Fiji.app/plugins/ArchipelagoPlugins-0.5.4.jar:/home/ju/Fiji.app/plugins/Arrow-2.0.2.jar:/home/ju/Fiji.app/plugins/Auto_Local_Threshold-1.10.1.jar:/home/ju/Fiji.app/plugins/AutoThreshold-1.17.2.jar:/home/ju/Fiji.app/plugins/BAR-1.5.2-SNAPSHOT.jar:/home/ju/Fiji.app/plugins/BalloonSegmentation_-3.0.1.jar:/home/ju/Fiji.app/plugins/jars/BeanShell.jar:/home/ju/Fiji.app/plugins/Bug_Submitter-2.1.1.jar:/home/ju/Fiji.app/plugins/CPU_Meter-2.0.1.jar:/home/ju/Fiji.app/plugins/Calculator_Plus-2.0.1.jar:/home/ju/Fiji.app/plugins/Cell_Counter-3.0.0.jar:/home/ju/Fiji.app/plugins/Colocalisation_Analysis-3.0.5.jar:/home/ju/Fiji.app/plugins/Color_Histogram-2.0.7.jar:/home/ju/Fiji.app/plugins/Color_Inspector_3D-2.5.0.jar:/home/ju/Fiji.app/plugins/ColourDeconvolution-3.0.3.jar:/home/ju/Fiji.app/plugins/CorrectBleach-2.0.3.jar:/home/ju/Fiji.app/plugins/Correct_3D_Drift-1.0.6.jar:/home/ju/Fiji.app/plugins/Descriptor_basedregistration-2.1.7.jar:/home/ju/Fiji.app/plugins/Dichromacy-2.1.2.jar:/home/ju/Fiji.app/plugins/Differentials-2.0.0.jar:/home/ju/Fiji.app/plugins/Directionality-2.3.0.jar:/home/ju/Fiji.app/plugins/Extended_Depth_Field-2.0.1.jar:/home/ju/Fiji.app/plugins/FS_AlignTrakEM2-2.0.3.jar:/home/ju/Fiji.app/jars/FastInfoset-1.2.16.jar:/home/ju/Fiji.app/plugins/FeatureJ.jar:/home/ju/Fiji.app/plugins/Feature_Detection-2.0.2.jar:/home/ju/Fiji.app/plugins/Fiji_Archipelago-2.0.1.jar:/home/ju/Fiji.app/plugins/Fiji_Developer-2.0.7.jar:/home/ju/Fiji.app/plugins/Fiji_Package_Maker-2.1.1.jar:/home/ju/Fiji.app/plugins/Fiji_Plugins-3.1.1.jar:/home/ju/Fiji.app/plugins/Fiji_Relax-0.0.1-SNAPSHOT.jar:/home/ju/Fiji.app/plugins/FijiyamaGUI-4.0.0.jar:/home/ju/Fiji.app/plugins/FlowJ-2.0.1.jar:/home/ju/Fiji.app/plugins/Graph_Cut-1.0.2.jar:/home/ju/Fiji.app/plugins/Gray_Morphology-2.3.5.jar:/home/ju/Fiji.app/plugins/H5J_Loader_Plugin-1.1.0.jar:/home/ju/Fiji.app/plugins/HDF5_Vibez-1.1.0.jar:/home/ju/Fiji.app/plugins/Helmholtz_Analysis-2.0.2.jar:/home/ju/Fiji.app/plugins/Hough_CircleTransform-1.0.0-RELEASE.jar:/home/ju/Fiji.app/plugins/IO-4.1.0.jar:/home/ju/Fiji.app/plugins/Image_5D-2.0.2.jar:/home/ju/Fiji.app/plugins/Image_Expression_Parser-3.0.1.jar:/home/ju/Fiji.app/plugins/SCF-MPICBG/InteractiveWatershed-1.2.1.jar:/home/ju/Fiji.app/plugins/Interactive_3D_Surface_Plot-3.0.0.jar:/home/ju/Fiji.app/plugins/IsoData_Classifier-2.0.1.jar:/home/ju/Fiji.app/jars/JWlz-1.4.0.jar:/home/ju/Fiji.app/plugins/jars/Jython.jar:/home/ju/Fiji.app/jars/Kappa-2.0.0.jar:/home/ju/Fiji.app/plugins/Kuwahara_Filter-2.0.1.jar:/home/ju/Fiji.app/plugins/KymographBuilder-2.1.1.jar:/home/ju/Fiji.app/plugins/LSM_Reader-4.1.2.jar:/home/ju/Fiji.app/plugins/LSM_Toolbox-4.1.2.jar:/home/ju/Fiji.app/plugins/Lasso_and_Blow_Tool-2.0.2.jar:/home/ju/Fiji.app/plugins/LinearKuwahara-2.0.1.jar:/home/ju/Fiji.app/plugins/LocalThickness-4.0.3.jar:/home/ju/Fiji.app/plugins/MTrack2-2.0.1.jar:/home/ju/Fiji.app/plugins/MTrackJ.jar:/home/ju/Fiji.app/plugins/M_I_P-2.0.1.jar:/home/ju/Fiji.app/plugins/ManualTracking-2.1.1.jar:/home/ju/Fiji.app/plugins/MorphoLibJ-1.4.2.1.jar:/home/ju/Fiji.app/plugins/Morphometry-1.0.0.jar:/home/ju/Fiji.app/plugins/MosaicJ-2.0.0.jar:/home/ju/Fiji.app/plugins/Mosaic_ToolSuite/MosaicSuite-1.0.22.jar:/home/ju/Fiji.app/plugins/MultiKymograph-3.0.1.jar:/home/ju/Fiji.app/plugins/NeuronJ.jar:/home/ju/Fiji.app/jars/OMEVisual-2.0.0.jar:/home/ju/Fiji.app/plugins/OOFTubularityMeasure_Plugin.jar:/home/ju/Fiji.app/plugins/DiameterJFiji-1-018/OrientationJ/OrientationJ.jar:/home/ju/Fiji.app/plugins/OrientationJ_-2.0.4.jar:/home/ju/Fiji.app/plugins/PIVanalyser-1.1.2.jar:/home/ju/Fiji.app/plugins/PointPicker-2.0.0.jar:/home/ju/Fiji.app/plugins/QuickPALM_-1.1.2.jar:/home/ju/Fiji.app/plugins/QuiverPlot-0.2.0-SNAPSHOT.jar:/home/ju/Fiji.app/plugins/RATS-2.0.2.jar:/home/ju/Fiji.app/plugins/RandomJ_.jar:/home/ju/Fiji.app/plugins/Reconstruct_Reader-2.0.4.jar:/home/ju/Fiji.app/plugins/SCF_ImgTools-1.3.3.jar:/home/ju/Fiji.app/jars/SNT-3.2.2.jar:/home/ju/Fiji.app/plugins/SPIM_Opener-2.0.2.jar:/home/ju/Fiji.app/plugins/SPIMRegistration-5.0.21.jar:/home/ju/Fiji.app/jars/ST4-4.0.8.jar:/home/ju/Fiji.app/plugins/Samples-2.0.2.jar:/home/ju/Fiji.app/plugins/SeriesLabeler-2.0.1.jar:/home/ju/Fiji.app/plugins/SheppLogan-2.0.0.jar:/home/ju/Fiji.app/plugins/Sholl_Analysis-4.0.2.jar:/home/ju/Fiji.app/plugins/Simple_Neurite_Tracer-3.1.10.jar:/home/ju/Fiji.app/plugins/Siox_Segmentation-1.0.5.jar:/home/ju/Fiji.app/plugins/DiameterJFiji-_1-018/Skeleton%20Analysis/SkeletonIntersections.jar:/home/ju/Fiji.app/plugins/Skeletonize3D-2.1.1.jar:/home/ju/Fiji.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txw2-2.3.2.jar:/home/ju/Fiji.app/jars/udunits-4.3.18.jar:/home/ju/Fiji.app/jars/ui-behaviour-2.0.3.jar:/home/ju/Fiji.app/jars/unsafe-fences-1.0.jar:/home/ju/Fiji.app/jars/utils-0.8.1906.jar:/home/ju/Fiji.app/jars/vecmath-1.6.0-scijava-2.jar:/home/ju/Fiji.app/jars/wavelets-2.0.0.jar:/home/ju/Fiji.app/jars/weavejy2java-2.1.1.jar:/home/ju/Fiji.app/jars/weka-dev-3.9.4.jar:/home/ju/Fiji.app/jars/xalan-2.7.2.jar:/home/ju/Fiji.app/jars/xchart-3.5.4.jar:/home/ju/Fiji.app/jars/xerbla-0.8.jar:/home/ju/Fiji.app/jars/xercesImpl-2.8.1.jar:/home/ju/Fiji.app/plugins/xlib.jar:/home/ju/Fiji.app/jars/xml-apis-ext-1.3.04.jar:/home/ju/Fiji.app/jars/xmlgraphics-commons-2.4.jar:/home/ju/Fiji.app/jars/xmpcore-5.1.3.jar:/home/ju/Fiji.app/jars/xpp3-1.1.4c.jar:/home/ju/Fiji.app/jars/xz-1.8.jar:/home/ju/Fiji.app/jars/yecht-0.0.0-STUB.jar:/home/ju/Fiji.app/plugins/z_spacing-1.1.1.jar:/home/ju/Fiji.app/java/linux-amd64/jdk1.8.0172/jre/lib/ext/zipfs.jar, -d, /tmp/java3260347104857933114/target/classes, /tmp/java3260347104857933114/src/main/java/eu/marbilab/imagej/Steerable3D.java] using the class path: /tmp/java3260347104857933114/target/classes:/home/ju/Fiji.app/plugins/3D_Blob_Segmentation-3.0.1.jar:/home/ju/Fiji.app/plugins/3D_Objects_Counter-2.0.1.jar:/home/ju/Fiji.app/plugins/3D_Viewer-4.0.3.jar:/home/ju/Fiji.app/plugins/ANKAphase_21.jar:/home/ju/Fiji.app/jars/AbsoluteLayout-RELEASE802.jar:/home/ju/Fiji.app/plugins/AnalyzeSkeleton-3.4.2.jar:/home/ju/Fiji.app/plugins/Angio_Tool-0.5.1.jar:/home/ju/Fiji.app/plugins/Anisotropic_Diffusion_2D-2.0.1.jar:/home/ju/Fiji.app/plugins/ArchipelagoPlugins-0.5.4.jar:/home/ju/Fiji.app/plugins/Arrow-2.0.2.jar:/home/ju/Fiji.app/plugins/Auto_Local_Threshold-1.10.1.jar:/home/ju/Fiji.app/plugins/AutoThreshold-1.17.2.jar:/home/ju/Fiji.app/plugins/BAR-1.5.2-SNAPSHOT.jar:/home/ju/Fiji.app/plugins/BalloonSegmentation_-3.0.1.jar:/home/ju/Fiji.app/plugins/jars/BeanShell.jar:/home/ju/Fiji.app/plugins/Bug_Submitter-2.1.1.jar:/home/ju/Fiji.app/plugins/CPU_Meter-2.0.1.jar:/home/ju/Fiji.app/plugins/Calculator_Plus-2.0.1.jar:/home/ju/Fiji.app/plugins/Cell_Counter-3.0.0.jar:/home/ju/Fiji.app/plugins/Colocalisation_Analysis-3.0.5.jar:/home/ju/Fiji.app/plugins/Color_Histogram-2.0.7.jar:/home/ju/Fiji.app/plugins/Color_Inspector_3D-2.5.0.jar:/home/ju/Fiji.app/plugins/ColourDeconvolution-3.0.3.jar:/home/ju/Fiji.app/plugins/CorrectBleach-2.0.3.jar:/home/ju/Fiji.app/plugins/Correct_3D_Drift-1.0.6.jar:/home/ju/Fiji.app/plugins/Descriptor_basedregistration-2.1.7.jar:/home/ju/Fiji.app/plugins/Dichromacy-2.1.2.jar:/home/ju/Fiji.app/plugins/Differentials-2.0.0.jar:/home/ju/Fiji.app/plugins/Directionality-2.3.0.jar:/home/ju/Fiji.app/plugins/Extended_Depth_Field-2.0.1.jar:/home/ju/Fiji.app/plugins/FS_AlignTrakEM2-2.0.3.jar:/home/ju/Fiji.app/jars/FastInfoset-1.2.16.jar:/home/ju/Fiji.app/plugins/FeatureJ.jar:/home/ju/Fiji.app/plugins/Feature_Detection-2.0.2.jar:/home/ju/Fiji.app/plugins/Fiji_Archipelago-2.0.1.jar:/home/ju/Fiji.app/plugins/Fiji_Developer-2.0.7.jar:/home/ju/Fiji.app/plugins/Fiji_Package_Maker-2.1.1.jar:/home/ju/Fiji.app/plugins/Fiji_Plugins-3.1.1.jar:/home/ju/Fiji.app/plugins/Fiji_Relax-0.0.1-SNAPSHOT.jar:/home/ju/Fiji.app/plugins/FijiyamaGUI-4.0.0.jar:/home/ju/Fiji.app/plugins/FlowJ-2.0.1.jar:/home/ju/Fiji.app/plugins/Graph_Cut-1.0.2.jar:/home/ju/Fiji.app/plugins/Gray_Morphology-2.3.5.jar:/home/ju/Fiji.app/plugins/H5J_Loader_Plugin-1.1.0.jar:/home/ju/Fiji.app/plugins/HDF5_Vibez-1.1.0.jar:/home/ju/Fiji.app/plugins/Helmholtz_Analysis-2.0.2.jar:/home/ju/Fiji.app/plugins/Hough_CircleTransform-1.0.0-RELEASE.jar:/home/ju/Fiji.app/plugins/IO-4.1.0.jar:/home/ju/Fiji.app/plugins/Image_5D-2.0.2.jar:/home/ju/Fiji.app/plugins/Image_Expression_Parser-3.0.1.jar:/home/ju/Fiji.app/plugins/SCF-MPICBG/InteractiveWatershed-1.2.1.jar:/home/ju/Fiji.app/plugins/Interactive_3D_Surface_Plot-3.0.0.jar:/home/ju/Fiji.app/plugins/IsoData_Classifier-2.0.1.jar:/home/ju/Fiji.app/jars/JWlz-1.4.0.jar:/home/ju/Fiji.app/plugins/jars/Jython.jar:/home/ju/Fiji.app/jars/Kappa-2.0.0.jar:/home/ju/Fiji.app/plugins/Kuwahara_Filter-2.0.1.jar:/home/ju/Fiji.app/plugins/KymographBuilder-2.1.1.jar:/home/ju/Fiji.app/plugins/LSM_Reader-4.1.2.jar:/home/ju/Fiji.app/plugins/LSM_Toolbox-4.1.2.jar:/home/ju/Fiji.app/plugins/Lasso_and_Blow_Tool-2.0.2.jar:/home/ju/Fiji.app/plugins/LinearKuwahara-2.0.1.jar:/home/ju/Fiji.app/plugins/LocalThickness-4.0.3.jar:/home/ju/Fiji.app/plugins/MTrack2-2.0.1.jar:/home/ju/Fiji.app/plugins/MTrackJ.jar:/home/ju/Fiji.app/plugins/M_I_P-2.0.1.jar:/home/ju/Fiji.app/plugins/ManualTracking-2.1.1.jar:/home/ju/Fiji.app/plugins/MorphoLibJ-1.4.2.1.jar:/home/ju/Fiji.app/plugins/Morphometry-1.0.0.jar:/home/ju/Fiji.app/plugins/MosaicJ-2.0.0.jar:/home/ju/Fiji.app/plugins/Mosaic_ToolSuite/MosaicSuite-1.0.22.jar:/home/ju/Fiji.app/plugins/MultiKymograph-3.0.1.jar:/home/ju/Fiji.app/plugins/NeuronJ.jar:/home/ju/Fiji.app/jars/OMEVisual-2.0.0.jar:/home/ju/Fiji.app/plugins/OOFTubularityMeasure_Plugin.jar:/home/ju/Fiji.app/plugins/DiameterJFiji-1-018/OrientationJ/OrientationJ.jar:/home/ju/Fiji.app/plugins/OrientationJ_-2.0.4.jar:/home/ju/Fiji.app/plugins/PIVanalyser-1.1.2.jar:/home/ju/Fiji.app/plugins/PointPicker-2.0.0.jar:/home/ju/Fiji.app/plugins/QuickPALM_-1.1.2.jar:/home/ju/Fiji.app/plugins/QuiverPlot-0.2.0-SNAPSHOT.jar:/home/ju/Fiji.app/plugins/RATS-2.0.2.jar:/home/ju/Fiji.app/plugins/RandomJ_.jar:/home/ju/Fiji.app/plugins/Reconstruct_Reader-2.0.4.jar:/home/ju/Fiji.app/plugins/SCF_ImgTools-1.3.3.jar:/home/ju/Fiji.app/jars/SNT-3.2.2.jar:/home/ju/Fiji.app/plugins/SPIM_Opener-2.0.2.jar:/home/ju/Fiji.app/plugins/SPIMRegistration-5.0.21.jar:/home/ju/Fiji.app/jars/ST4-4.0.8.jar:/home/ju/Fiji.app/plugins/Samples-2.0.2.jar:/home/ju/Fiji.app/plugins/SeriesLabeler-2.0.1.jar:/home/ju/Fiji.app/plugins/SheppLogan-2.0.0.jar:/home/ju/Fiji.app/plugins/Sholl_Analysis-4.0.2.jar:/home/ju/Fiji.app/plugins/Simple_Neurite_Tracer-3.1.10.jar:/home/ju/Fiji.app/plugins/Siox_Segmentation-1.0.5.jar:/home/ju/Fiji.app/plugins/DiameterJFiji-_1-018/Skeleton%20Analysis/SkeletonIntersections.jar:/home/ju/Fiji.app/plugins/Skeletonize3D-2.1.1.jar:/home/ju/Fiji.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-constants-0.9.12.jar:/home/ju/Fiji.app/jars/jnr-enxio-0.16.jar:/home/ju/Fiji.app/jars/jnr-ffi-2.1.10.jar:/home/ju/Fiji.app/jars/jnr-netdb-1.1.6.jar:/home/ju/Fiji.app/jars/jnr-posix-3.0.50.jar:/home/ju/Fiji.app/jars/jnr-unixsocket-0.17.jar:/home/ju/Fiji.app/jars/jnr-x86asm-1.0.2.jar:/home/ju/Fiji.app/jars/joal-2.3.2.jar:/home/ju/Fiji.app/jars/linux64/joal-2.3.2-natives-linux-amd64.jar:/home/ju/Fiji.app/jars/joal-main-2.3.2.jar:/home/ju/Fiji.app/jars/jocl-2.3.2.jar:/home/ju/Fiji.app/jars/linux64/jocl-2.3.2-natives-linux-amd64.jar:/home/ju/Fiji.app/jars/jocl-main-2.3.2.jar:/home/ju/Fiji.app/jars/joda-time-2.10.6.jar:/home/ju/Fiji.app/jars/jogl-all-2.3.2.jar:/home/ju/Fiji.app/jars/linux64/jogl-all-2.3.2-natives-linux-amd64.jar:/home/ju/Fiji.app/jars/jogl-all-main-2.3.2.jar:/home/ju/Fiji.app/jars/joml-1.9.25.jar:/home/ju/Fiji.app/jars/joni-2.1.29.jar:/home/ju/Fiji.app/jars/jpedalSTD-2.80b11.jar:/home/ju/Fiji.app/jars/jply-0.2.1.jar:/home/ju/Fiji.app/jars/jruby-core-9.1.17.0.jar:/home/ju/Fiji.app/jars/jruby-stdlib-9.1.17.0.jar:/home/ju/Fiji.app/jars/jsch-0.1.55.jar:/home/ju/Fiji.app/jars/json-20201115.jar:/home/ju/Fiji.app/jars/jsoup-1.7.2.jar:/home/ju/Fiji.app/jars/jsr166y-1.7.0.jar:/home/ju/Fiji.app/jars/jsr305-3.0.2.jar:/home/ju/Fiji.app/jars/jtransforms-2.4.jar:/home/ju/Fiji.app/plugins/Mosaic_ToolSuite/jtransforms-2.4.0.jar:/home/ju/Fiji.app/jars/jung-api-2.0.1.jar:/home/ju/Fiji.app/jars/jung-graph-impl-2.0.1.jar:/home/ju/Fiji.app/jars/bio-formats/jxrlib-all-0.2.4.jar:/home/ju/Fiji.app/jars/jython-shaded-0.0.0-STUB.jar:/home/ju/Fiji.app/jars/jython-slim-2.7.2.jar:/home/ju/Fiji.app/jars/jzlib-1.1.3.jar:/home/ju/Fiji.app/jars/jzy3d-api-1.0.3.jar:/home/ju/Fiji.app/jars/jzy3d-jdt-core-1.0.3.jar:/home/ju/Fiji.app/jars/kotlin-stdlib-1.3.50.jar:/home/ju/Fiji.app/jars/kotlin-stdlib-common-1.3.70.jar:/home/ju/Fiji.app/jars/kryo-2.24.0.jar:/home/ju/Fiji.app/jars/languagesupport-3.1.0.jar:/home/ju/Fiji.app/jars/lapack-0.8.jar:/home/ju/Fiji.app/jars/legacy-imglib1-1.1.9.jar:/home/ju/Fiji.app/plugins/level_sets-1.0.2.jar:/home/ju/Fiji.app/plugins/lma.jar:/home/ju/Fiji.app/java/linux-amd64/jdk1.8.0_172/jre/lib/ext/localedata.jar:/home/ju/Fiji.app/jars/log4j-1.2.17.jar:/home/ju/Fiji.app/jars/logback-classic-1.2.3.jar:/home/ju/Fiji.app/jars/logback-core-1.2.3.jar:/home/ju/Fiji.app/jars/lz4-java-1.7.1.jar:/home/ju/Fiji.app/jars/mapdb-0.0.0-STUB.jar:/home/ju/Fiji.app/plugins/Mosaic_ToolSuite/mapdb-1.0.3.jar:/home/ju/Fiji.app/jars/markdownj-0.3.0-1.0.2b4.jar:/home/ju/Fiji.app/jars/maven-scm-api-1.4.jar:/home/ju/Fiji.app/jars/maven-scm-provider-svn-commons-1.4.jar:/home/ju/Fiji.app/jars/maven-scm-provider-svnexe-1.4.jar:/home/ju/Fiji.app/jars/mchange-commons-java-0.2.15.jar:/home/ju/Fiji.app/plugins/mcib3d-suite/mcib3d-core-3.96.4.jar:/home/ju/Fiji.app/plugins/mcib3d-suite/mcib3d_plugins-3.96.4.jar:/home/ju/Fiji.app/jars/metadata-extractor-2.11.0.jar:/home/ju/Fiji.app/jars/bio-formats/metakit-5.3.2.jar:/home/ju/Fiji.app/jars/methods-0.8.1906.jar:/home/ju/Fiji.app/jars/miglayout-core-5.2.jar:/home/ju/Fiji.app/jars/miglayout-swing-5.2.jar:/home/ju/Fiji.app/jars/mij-1.3.6-fiji2.jar:/home/ju/Fiji.app/jars/mines-jtk-20151125.jar:/home/ju/Fiji.app/plugins/MosaicToolSuite/mines-jtk-20151125.jar:/home/ju/Fiji.app/jars/minimaven-2.2.2.jar:/home/ju/Fiji.app/jars/minio-5.0.2.jar:/home/ju/Fiji.app/jars/minlog-1.2.jar:/home/ju/Fiji.app/jars/modulator-1.0.jar:/home/ju/Fiji.app/jars/mpicbg-1.4.1.jar:/home/ju/Fiji.app/plugins/mpicbg-1.4.1.jar:/home/ju/Fiji.app/jars/mtj-1.0.4.jar:/home/ju/Fiji.app/jars/multiverse-core-0.7.0.jar:/home/ju/Fiji.app/jars/n5-2.4.0.jar:/home/ju/Fiji.app/jars/n5-aws-s3-3.2.0.jar:/home/ju/Fiji.app/jars/n5-blosc-1.1.0.jar:/home/ju/Fiji.app/jars/n5-google-cloud-3.3.1.jar:/home/ju/Fiji.app/jars/n5-hdf5-1.2.0.jar:/home/ju/Fiji.app/jars/n5-ij-1.2.0.jar:/home/ju/Fiji.app/jars/n5-imglib2-3.5.1.jar:/home/ju/Fiji.app/plugins/n5-viewer_fiji-4.1.0.jar:/home/ju/Fiji.app/jars/n5-zarr-0.0.6.jar:/home/ju/Fiji.app/jars/nailgun-server-0.9.1.jar:/home/ju/Fiji.app/java/linux-amd64/jdk1.8.0_172/jre/lib/ext/nashorn.jar:/home/ju/Fiji.app/jars/native-lib-loader-2.3.4.jar:/home/ju/Fiji.app/plugins/Mosaic_ToolSuite/net.jgeom.nurbs-1.0.0.jar:/home/ju/Fiji.app/jars/netcdf-4.3.22.jar:/home/ju/Fiji.app/jars/netlib-java-0.9.3-renjin-patched-2.jar:/home/ju/Fiji.app/jars/netty-buffer-4.1.45.Final.jar:/home/ju/Fiji.app/jars/netty-codec-4.1.45.Final.jar:/home/ju/Fiji.app/jars/netty-common-4.1.45.Final.jar:/home/ju/Fiji.app/jars/netty-handler-4.1.45.Final.jar:/home/ju/Fiji.app/jars/netty-resolver-4.1.45.Final.jar:/home/ju/Fiji.app/jars/netty-transport-4.1.45.Final.jar:/home/ju/Fiji.app/plugins/niftiio.jar:/home/ju/Fiji.app/jars/object-inspector-0.1.jar:/home/ju/Fiji.app/jars/objenesis-2.1.jar:/home/ju/Fiji.app/jars/ojalgo-45.1.1.jar:/home/ju/Fiji.app/jars/okhttp-4.7.2.jar:/home/ju/Fiji.app/jars/okio-2.6.0.jar:/home/ju/Fiji.app/jars/bio-formats/ome-codecs-0.3.0.jar:/home/ju/Fiji.app/jars/bio-formats/ome-common-6.0.6.jar:/home/ju/Fiji.app/jars/bio-format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txw2-2.3.2.jar:/home/ju/Fiji.app/jars/udunits-4.3.18.jar:/home/ju/Fiji.app/jars/ui-behaviour-2.0.3.jar:/home/ju/Fiji.app/jars/unsafe-fences-1.0.jar:/home/ju/Fiji.app/jars/utils-0.8.1906.jar:/home/ju/Fiji.app/jars/vecmath-1.6.0-scijava-2.jar:/home/ju/Fiji.app/jars/wavelets-2.0.0.jar:/home/ju/Fiji.app/jars/weavejy2java-2.1.1.jar:/home/ju/Fiji.app/jars/weka-dev-3.9.4.jar:/home/ju/Fiji.app/jars/xalan-2.7.2.jar:/home/ju/Fiji.app/jars/xchart-3.5.4.jar:/home/ju/Fiji.app/jars/xerbla-0.8.jar:/home/ju/Fiji.app/jars/xercesImpl-2.8.1.jar:/home/ju/Fiji.app/plugins/xlib.jar:/home/ju/Fiji.app/jars/xml-apis-ext-1.3.04.jar:/home/ju/Fiji.app/jars/xmlgraphics-commons-2.4.jar:/home/ju/Fiji.app/jars/xmpcore-5.1.3.jar:/home/ju/Fiji.app/jars/xpp3-1.1.4c.jar:/home/ju/Fiji.app/jars/xz-1.8.jar:/home/ju/Fiji.app/jars/yecht-0.0.0-STUB.jar:/home/ju/Fiji.app/plugins/z_spacing-1.1.1.jar:/home/ju/Fiji.app/java/linux-amd64/jdk1.8.0_172/jre/lib/ext/zipfs.jar No javax.tools.JavaCompiler available. Checking for explicit javac. No javac.jar found (looked in /home/ju/Fiji.app/jars)! java.lang.ClassNotFoundException: com.sun.tools.javac.Main at java.net.URLClassLoader.findClass(URLClassLoader.java:381) at java.lang.ClassLoader.loadClass(ClassLoader.java:424) at sun.misc.Launcher$AppClassLoader.loadClass(Launcher.java:349) at java.lang.ClassLoader.loadClass(ClassLoader.java:357) at org.scijava.minimaven.JavaCompiler.call(JavaCompiler.java:94) at org.scijava.minimaven.MavenProject.build(MavenProject.java:538) at org.scijava.minimaven.MavenProject.build(MavenProject.java:463) at org.scijava.minimaven.MavenProject.build(MavenProject.java:446) at org.scijava.plugins.scripting.java.JavaEngine.compile(JavaEngine.java:209) at org.scijava.plugins.scripting.java.JavaEngine.eval(JavaEngine.java:136) at org.scijava.script.ScriptModule.run(ScriptModule.java:157) at org.scijava.module.ModuleRunner.run(ModuleRunner.java:165) at org.scijava.module.ModuleRunner.call(ModuleRunner.java:124) at org.scijava.module.ModuleRunner.call(ModuleRunner.java:63) at org.scijava.thread.DefaultThreadService.lambda$wrap$2(DefaultThreadService.java:225) at java.util.concurrent.FutureTask.run(FutureTask.java:266) at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1149) at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:624) at java.lang.Thread.run(Thread.java:748) Could not find javac java.lang.ClassNotFoundException: com.sun.tools.javac.Main, falling back to system javac Executing: 'javac' '-classpath' '/tmp/java3260347104857933114/target/classes:/home/ju/Fiji.app/plugins/3D_Blob_Segmentation-3.0.1.jar:/home/ju/Fiji.app/plugins/3D_Objects_Counter-2.0.1.jar:/home/ju/Fiji.app/plugins/3D_Viewer-4.0.3.jar:/home/ju/Fiji.app/plugins/ANKAphase_21.jar:/home/ju/Fiji.app/jars/AbsoluteLayout-RELEASE802.jar:/home/ju/Fiji.app/plugins/AnalyzeSkeleton-3.4.2.jar:/home/ju/Fiji.app/plugins/Angio_Tool-0.5.1.jar:/home/ju/Fiji.app/plugins/Anisotropic_Diffusion_2D-2.0.1.jar:/home/ju/Fiji.app/plugins/ArchipelagoPlugins-0.5.4.jar:/home/ju/Fiji.app/plugins/Arrow-2.0.2.jar:/home/ju/Fiji.app/plugins/Auto_Local_Threshold-1.10.1.jar:/home/ju/Fiji.app/plugins/AutoThreshold-1.17.2.jar:/home/ju/Fiji.app/plugins/BAR-1.5.2-SNAPSHOT.jar:/home/ju/Fiji.app/plugins/BalloonSegmentation_-3.0.1.jar:/home/ju/Fiji.app/plugins/jars/BeanShell.jar:/home/ju/Fiji.app/plugins/Bug_Submitter-2.1.1.jar:/home/ju/Fiji.app/plugins/CPU_Meter-2.0.1.jar:/home/ju/Fiji.app/plugins/Calculator_Plus-2.0.1.jar:/home/ju/Fiji.app/plugins/Cell_Counter-3.0.0.jar:/home/ju/Fiji.app/plugins/Colocalisation_Analysis-3.0.5.jar:/home/ju/Fiji.app/plugins/Color_Histogram-2.0.7.jar:/home/ju/Fiji.app/plugins/Color_Inspector_3D-2.5.0.jar:/home/ju/Fiji.app/plugins/ColourDeconvolution-3.0.3.jar:/home/ju/Fiji.app/plugins/CorrectBleach-2.0.3.jar:/home/ju/Fiji.app/plugins/Correct_3D_Drift-1.0.6.jar:/home/ju/Fiji.app/plugins/Descriptor_basedregistration-2.1.7.jar:/home/ju/Fiji.app/plugins/Dichromacy-2.1.2.jar:/home/ju/Fiji.app/plugins/Differentials-2.0.0.jar:/home/ju/Fiji.app/plugins/Directionality-2.3.0.jar:/home/ju/Fiji.app/plugins/Extended_Depth_Field-2.0.1.jar:/home/ju/Fiji.app/plugins/FS_AlignTrakEM2-2.0.3.jar:/home/ju/Fiji.app/jars/FastInfoset-1.2.16.jar:/home/ju/Fiji.app/plugins/FeatureJ.jar:/home/ju/Fiji.app/plugins/Feature_Detection-2.0.2.jar:/home/ju/Fiji.app/plugins/Fiji_Archipelago-2.0.1.jar:/home/ju/Fiji.app/plugins/Fiji_Developer-2.0.7.jar:/home/ju/Fiji.app/plugins/Fiji_Package_Maker-2.1.1.jar:/home/ju/Fiji.app/plugins/Fiji_Plugins-3.1.1.jar:/home/ju/Fiji.app/plugins/Fiji_Relax-0.0.1-SNAPSHOT.jar:/home/ju/Fiji.app/plugins/FijiyamaGUI-4.0.0.jar:/home/ju/Fiji.app/plugins/FlowJ-2.0.1.jar:/home/ju/Fiji.app/plugins/Graph_Cut-1.0.2.jar:/home/ju/Fiji.app/plugins/Gray_Morphology-2.3.5.jar:/home/ju/Fiji.app/plugins/H5J_Loader_Plugin-1.1.0.jar:/home/ju/Fiji.app/plugins/HDF5_Vibez-1.1.0.jar:/home/ju/Fiji.app/plugins/Helmholtz_Analysis-2.0.2.jar:/home/ju/Fiji.app/plugins/Hough_CircleTransform-1.0.0-RELEASE.jar:/home/ju/Fiji.app/plugins/IO-4.1.0.jar:/home/ju/Fiji.app/plugins/Image_5D-2.0.2.jar:/home/ju/Fiji.app/plugins/Image_Expression_Parser-3.0.1.jar:/home/ju/Fiji.app/plugins/SCF-MPICBG/InteractiveWatershed-1.2.1.jar:/home/ju/Fiji.app/plugins/Interactive_3D_Surface_Plot-3.0.0.jar:/home/ju/Fiji.app/plugins/IsoData_Classifier-2.0.1.jar:/home/ju/Fiji.app/jars/JWlz-1.4.0.jar:/home/ju/Fiji.app/plugins/jars/Jython.jar:/home/ju/Fiji.app/jars/Kappa-2.0.0.jar:/home/ju/Fiji.app/plugins/Kuwahara_Filter-2.0.1.jar:/home/ju/Fiji.app/plugins/KymographBuilder-2.1.1.jar:/home/ju/Fiji.app/plugins/LSM_Reader-4.1.2.jar:/home/ju/Fiji.app/plugins/LSM_Toolbox-4.1.2.jar:/home/ju/Fiji.app/plugins/Lasso_and_Blow_Tool-2.0.2.jar:/home/ju/Fiji.app/plugins/LinearKuwahara-2.0.1.jar:/home/ju/Fiji.app/plugins/LocalThickness-4.0.3.jar:/home/ju/Fiji.app/plugins/MTrack2-2.0.1.jar:/home/ju/Fiji.app/plugins/MTrackJ.jar:/home/ju/Fiji.app/plugins/M_I_P-2.0.1.jar:/home/ju/Fiji.app/plugins/ManualTracking-2.1.1.jar:/home/ju/Fiji.app/plugins/MorphoLibJ-1.4.2.1.jar:/home/ju/Fiji.app/plugins/Morphometry-1.0.0.jar:/home/ju/Fiji.app/plugins/MosaicJ-2.0.0.jar:/home/ju/Fiji.app/plugins/Mosaic_ToolSuite/MosaicSuite-1.0.22.jar:/home/ju/Fiji.app/plugins/MultiKymograph-3.0.1.jar:/home/ju/Fiji.app/plugins/NeuronJ.jar:/home/ju/Fiji.app/jars/OMEVisual-2.0.0.jar:/home/ju/Fiji.app/plugins/OOFTubularityMeasure_Plugin.jar:/home/ju/Fiji.app/plugins/DiameterJFiji-1-018/OrientationJ/OrientationJ.jar:/home/ju/Fiji.app/plugins/OrientationJ_-2.0.4.jar:/home/ju/Fiji.app/plugins/PIVanalyser-1.1.2.jar:/home/ju/Fiji.app/plugins/PointPicker-2.0.0.jar:/home/ju/Fiji.app/plugins/QuickPALM_-1.1.2.jar:/home/ju/Fiji.app/plugins/QuiverPlot-0.2.0-SNAPSHOT.jar:/home/ju/Fiji.app/plugins/RATS-2.0.2.jar:/home/ju/Fiji.app/plugins/RandomJ_.jar:/home/ju/Fiji.app/plugins/Reconstruct_Reader-2.0.4.jar:/home/ju/Fiji.app/plugins/SCF_ImgTools-1.3.3.jar:/home/ju/Fiji.app/jars/SNT-3.2.2.jar:/home/ju/Fiji.app/plugins/SPIM_Opener-2.0.2.jar:/home/ju/Fiji.app/plugins/SPIMRegistration-5.0.21.jar:/home/ju/Fiji.app/jars/ST4-4.0.8.jar:/home/ju/Fiji.app/plugins/Samples-2.0.2.jar:/home/ju/Fiji.app/plugins/SeriesLabeler-2.0.1.jar:/home/ju/Fiji.app/plugins/SheppLogan-2.0.0.jar:/home/ju/Fiji.app/plugins/Sholl_Analysis-4.0.2.jar:/home/ju/Fiji.app/plugins/Simple_Neurite_Tracer-3.1.10.jar:/home/ju/Fiji.app/plugins/Siox_Segmentation-1.0.5.jar:/home/ju/Fiji.app/plugins/DiameterJFiji-_1-018/Skeleton%20Analysis/SkeletonIntersections.jar:/home/ju/Fiji.app/plugins/Skeletonize3D-2.1.1.jar:/home/ju/Fiji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/txw2-2.3.2.jar:/home/ju/Fiji.app/jars/udunits-4.3.18.jar:/home/ju/Fiji.app/jars/ui-behaviour-2.0.3.jar:/home/ju/Fiji.app/jars/unsafe-fences-1.0.jar:/home/ju/Fiji.app/jars/utils-0.8.1906.jar:/home/ju/Fiji.app/jars/vecmath-1.6.0-scijava-2.jar:/home/ju/Fiji.app/jars/wavelets-2.0.0.jar:/home/ju/Fiji.app/jars/weavejy2java-2.1.1.jar:/home/ju/Fiji.app/jars/weka-dev-3.9.4.jar:/home/ju/Fiji.app/jars/xalan-2.7.2.jar:/home/ju/Fiji.app/jars/xchart-3.5.4.jar:/home/ju/Fiji.app/jars/xerbla-0.8.jar:/home/ju/Fiji.app/jars/xercesImpl-2.8.1.jar:/home/ju/Fiji.app/plugins/xlib.jar:/home/ju/Fiji.app/jars/xml-apis-ext-1.3.04.jar:/home/ju/Fiji.app/jars/xmlgraphics-commons-2.4.jar:/home/ju/Fiji.app/jars/xmpcore-5.1.3.jar:/home/ju/Fiji.app/jars/xpp3-1.1.4c.jar:/home/ju/Fiji.app/jars/xz-1.8.jar:/home/ju/Fiji.app/jars/yecht-0.0.0-STUB.jar:/home/ju/Fiji.app/plugins/z_spacing-1.1.1.jar:/home/ju/Fiji.app/java/linux-amd64/jdk1.8.0172/jre/lib/ext/zipfs.jar' '-d' '/tmp/java3260347104857933114/target/classes' '/tmp/java3260347104857933114/src/main/java/eu/marbilab/imagej/Steerable3D.java'

j01993 commented 3 years ago

I opened the java script within Fiji, deleted first line and processed "compile and run". This works.