Multi Otsu Threshold

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Multi Otsu Threshold

Jeremy Adler
I have been happily using the
Multi Otsu Theshold in Imagej - it is useful when histogram based segmentation is faced with multiple peaks.
But while I can install it in FIJI, it crashes - see below

How can I fix this or alternatively is there an equivalent plugin that I could use ?

Jeremy Adler
BioVis
Uppsala U



Multi_OtsuThreshold not up-to-date because 1 source files are not up-to-date (C:\Users\Jerad415\AppData\Local\Temp\java2688674633997011237\src\main\java\Multi_OtsuThreshold.java)
Compiling 1 file in C:\Users\Jerad415\AppData\Local\Temp\java2688674633997011237
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JI02\Fiji.app\jars\imagej-plugins-commands-0.8.0.jar;C:\FIJI02\Fiji.app\jars\imagej-plugins-tools-0.3.1.jar;C:\FIJI02\Fiji.app\jars\imagej-plugins-uploader-ssh-0.3.2.jar;C:\FIJI02\Fiji.app\jars\imagej-plugins-uploader-webdav-0.2.2.jar;C:\FIJI02\Fiji.app\jars\imagej-scripting-0.8.2.jar;C:\FIJI02\Fiji.app\jars\imagej-ui-awt-0.3.1.jar;C:\FIJI02\Fiji.app\jars\imagej-ui-swing-0.21.4.jar;C:\FIJI02\Fiji.app\jars\imagej-updater-0.9.2.jar;C:\FIJI02\Fiji.app\jars\imagescience.jar;C:\FIJI02\Fiji.app\jars\imglib2-5.3.0.jar;C:\FIJI02\Fiji.app\jars\imglib2-algorithm-0.9.0.jar;C:\FIJI02\Fiji.app\jars\imglib2-algorithm-fft-0.2.0.jar;C:\FIJI02\Fiji.app\jars\imglib2-algorithm-gpl-0.2.3.jar;C:\FIJI02\Fiji.app\jars\imglib2-cache-1.0.0-beta-9.jar;C:\FIJI02\Fiji.app\jars\imglib2-ij-2.0.0-beta-42.jar;C:\FIJI02\Fiji.app\jars\imglib2-realtransform-2.0.0.jar;C:\FIJI02\Fiji.app\jars\imglib2-roi-0.5.2.jar;C:\FIJI02\Fiji.app\jars\imglib2-ui-2.0.0.jar;C:\FIJI02\Fiji.app\jars\invokebinder-1.2.jar;C:\FIJI02\Fiji.app\jars\itextpdf-5.5.13.jar;C:\FIJI02\Fiji.app\jars\ivy-2.4.0.jar;C:\FIJI02\Fiji.app\jars\j3dcore-1.6.0-scijava-2.jar;C:\FIJI02\Fiji.app\jars\j3dutils-1.6.0-scijava-2.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\jaccess.jar;C:\FIJI02\Fiji.app\jars\jai-codec-1.1.3.jar;C:\FIJI02\Fiji.app\jars\jai-core-1.1.3.jar;C:\FIJI02\Fiji.app\jars\bio-formats\jai_imageio-5.1.10.jar;C:\FIJI02\Fiji.app\jars\jama-1.0.3.jar;C:\FIJI02\Fiji.app\jars\javacpp-0.11.jar;C:\FIJI02\Fiji.app\jars\javassist-3.22.0-GA.jar;C:\FIJI02\Fiji.app\jars\jcodings-1.0.10.jar;C:\FIJI02\Fiji.app\jars\jcommander-1.48.jar;C:\FIJI02\Fiji.app\jars\jcommon-1.0.24.jar;C:\FIJI02\Fiji.app\jars\jdatepicker-1.3.2.jar;C:\FIJI02\Fiji.app\jars\jdom2-2.0.6.jar;C:\FIJI02\Fiji.app\jars\jep-2.4.2.jar;C:\FIJI02\Fiji.app\jars\jffi-1.2.7-native.jar;C:\FIJI02\Fiji.app\jars\jffi-1.2.7.jar;C:\FIJI02\Fiji.app\jars\jfreechart-1.5.0.jar;C:\FIJI02\Fiji.app\jars\jfreesvg-3.2.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\jfxrt.jar;C:\FIJI02\Fiji.app\jars\jgoodies-common-1.7.0.jar;C:\FIJI02\Fiji.app\jars\jgoodies-forms-1.7.2.jar;C:\FIJI02\Fiji.app\jars\jgrapht-0.8.3.jar;C:\FIJI02\Fiji.app\jars\jgraphx-3.4.1.3.jar;C:\FIJI02\Fiji.app\jars\jhdf5-14.12.6.jar;C:\FIJI02\Fiji.app\jars\jhotdraw-7.6.0.jar;C:\FIJI02\Fiji.app\jars\jide-oss-3.6.18.jar;C:\FIJI02\Fiji.app\jars\jitk-tps-3.0.0.jar;C:\FIJI02\Fiji.app\jars\jna-4.5.1.jar;C:\FIJI02\Fiji.app\jars\jnr-constants-0.8.5.jar;C:\FIJI02\Fiji.app\jars\jnr-enxio-0.4.jar;C:\FIJI02\Fiji.app\jars\jnr-ffi-1.0.7.jar;C:\FIJI02\Fiji.app\jars\jnr-netdb-1.1.2.jar;C:\FIJI02\Fiji.app\jars\jnr-posix-3.0.1.jar;C:\FIJI02\Fiji.app\jars\jnr-unixsocket-0.3.jar;C:\FIJI02\Fiji.app\jars\jnr-x86asm-1.0.2.jar;C:\FIJI02\Fiji.app\jars\joal-2.3.2.jar;C:\FIJI02\Fiji.app\jars\win64\joal-2.3.2-natives-windows-amd64.jar;C:\FIJI02\Fiji.app\jars\joal-main-2.3.2.jar;C:\FIJI02\Fiji.app\jars\jocl-2.3.2.jar;C:\FIJI02\Fiji.app\jars\win64\jocl-2.3.2-natives-windows-amd64.jar;C:\FIJI02\Fiji.app\jars\jocl-main-2.3.2.jar;C:\FIJI02\Fiji.app\jars\joda-time-2.10.jar;C:\FIJI02\Fiji.app\jars\jogl-all-2.3.2.jar;C:\FIJI02\Fiji.app\jars\win64\jogl-all-2.3.2-natives-windows-amd64.jar;C:\FIJI02\Fiji.app\jars\jogl-all-main-2.3.2.jar;C:\FIJI02\Fiji.app\jars\joml-1.9.9.jar;C:\FIJI02\Fiji.app\jars\joni-2.1.1.jar;C:\FIJI02\Fiji.app\jars\jpedalSTD-2.80b11.jar;C:\FIJI02\Fiji.app\jars\jruby-core-1.7.12.jar;C:\FIJI02\Fiji.app\jars\jruby-stdlib-1.7.12.jar;C:\FIJI02\Fiji.app\jars\jsch-0.1.54.jar;C:\FIJI02\Fiji.app\jars\json-20180813.jar;C:\FIJI02\Fiji.app\jars\jsoup-1.7.2.jar;C:\FIJI02\Fiji.app\jars\jsr166y-1.7.0.jar;C:\FIJI02\Fiji.app\jars\jtransforms-2.4.jar;C:\FIJI02\Fiji.app\jars\jung-api-2.0.1.jar;C:\FIJI02\Fiji.app\jars\jung-graph-impl-2.0.1.jar;C:\FIJI02\Fiji.app\jars\bio-formats\jxrlib-all-0.2.1.jar;C:\FIJI02\Fiji.app\jars\jython-shaded-2.7.1.jar;C:\FIJI02\Fiji.app\jars\jzlib-1.1.3.jar;C:\FIJI02\Fiji.app\jars\kryo-2.24.0.jar;C:\FIJI02\Fiji.app\jars\languagesupport-2.6.0.jar;C:\FIJI02\Fiji.app\jars\lapack-0.8.jar;C:\FIJI02\Fiji.app\jars\legacy-imglib1-1.1.9.jar;C:\FIJI02\Fiji.app\plugins\level_sets-1.0.2.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\localedata.jar;C:\FIJI02\Fiji.app\jars\log4j-1.2.17.jar;C:\FIJI02\Fiji.app\jars\logback-classic-1.2.3.jar;C:\FIJI02\Fiji.app\jars\logback-core-1.2.3.jar;C:\FIJI02\Fiji.app\jars\mapdb-1.0.3.jar;C:\FIJI02\Fiji.app\jars\markdownj-0.3.0-1.0.2b4.jar;C:\FIJI02\Fiji.app\jars\maven-scm-api-1.4.jar;C:\FIJI02\Fiji.app\jars\maven-scm-provider-svn-commons-1.4.jar;C:\FIJI02\Fiji.app\jars\maven-scm-provider-svnexe-1.4.jar;C:\FIJI02\Fiji.app\plugins\mcib3d-suite\mcib3d-core.jar;C:\FIJI02\Fiji.app\plugins\mcib3d-suite\mcib3d_plugins.jar;C:\FIJI02\Fiji.app\jars\metadata-extractor-2.6.2.jar;C:\FIJI02\Fiji.app\jars\bio-formats\metakit-5.3.2.jar;C:\FIJI02\Fiji.app\jars\methods-0.8.1906.jar;C:\FIJI02\Fiji.app\jars\miglayout-3.7.4-swing.jar;C:\FIJI02\Fiji.app\jars\mines-jtk-20151125.jar;C:\FIJI02\Fiji.app\jars\minimaven-2.2.1.jar;C:\FIJI02\Fiji.app\jars\minlog-1.2.jar;C:\FIJI02\Fiji.app\plugins\Morphology\morphology_collection.jar;C:\FIJI02\Fiji.app\jars\mpicbg-1.2.0.jar;C:\FIJI02\Fiji.app\plugins\mpicbg_-1.2.0.jar;C:\FIJI02\Fiji.app\jars\mtj-1.0.4.jar;C:\FIJI02\Fiji.app\jars\multiverse-core-0.7.0.jar;C:\FIJI02\Fiji.app\jars\nailgun-server-0.9.1.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\nashorn.jar;C:\FIJI02\Fiji.app\jars\native-lib-loader-2.3.1.jar;C:\FIJI02\Fiji.app\jars\netcdf-4.3.22.jar;C:\FIJI02\Fiji.app\jars\netlib-java-0.9.3-renjin-patched-2.jar;C:\FIJI02\Fiji.app\jars\object-inspector-0.1.jar;C:\FIJI02\Fiji.app\jars\objenesis-2.1.jar;C:\FIJI02\Fiji.app\jars\ojalgo-45.1.1.jar;C:\FIJI02\Fiji.app\jars\okhttp-3.11.0.jar;C:\FIJI02\Fiji.app\jars\okio-1.14.0.jar;C:\FIJI02\Fiji.app\jars\bio-formats\ome-codecs-0.2.2.jar;C:\FIJI02\Fiji.app\jars\bio-formats\ome-common-5.3.6.jar;C:\FIJI02\Fiji.app\jars\bio-formats\ome-jai-0.1.0.jar;C:\FIJI02\Fiji.app\jars\bio-formats\ome-mdbtools-5.3.2.jar;C:\FIJI02\Fiji.app\jars\bio-formats\ome-poi-5.3.3.jar;C:\FIJI02\Fiji.app\jars\bio-formats\ome-xml-5.6.3.jar;C:\FIJI02\Fiji.app\jars\op-finder-0.1.3.jar;C:\FIJI02\Fiji.app\jars\opencsv-3.9.jar;C:\FIJI02\Fiji.app\jars\options-1.1.jar;C:\FIJI02\Fiji.app\jars\pal-optimization-2.0.1.jar;C:\FIJI02\Fiji.app\plugins\panorama_-3.0.2.jar;C:\FIJI02\Fiji.app\jars\parsington-1.0.2.jar;C:\FIJI02\Fiji.app\jars\perf4j-0.9.13.jar;C:\FIJI02\Fiji.app\jars\plexus-utils-1.5.6.jar;C:\FIJI02\Fiji.app\jars\postgresql-9.1-901-1.jdbc4.jar;C:\FIJI02\Fiji.app\jars\prettytime-4.0.1.Final.jar;C:\FIJI02\Fiji.app\plugins\mcib3d-suite\quickhull3d-1.0.0.jar;C:\FIJI02\Fiji.app\jars\regexp-1.3.jar;C:\FIJI02\Fiji.app\plugins\register_virtual_stack_slices-3.0.5.jar;C:\FIJI02\Fiji.app\plugins\registration_3d-2.0.1.jar;C:\FIJI02\Fiji.app\jars\renjin-appl-0.8.1906.jar;C:\FIJI02\Fiji.app\jars\renjin-core-0.8.1906.jar;C:\FIJI02\Fiji.app\jars\renjin-gnur-runtime-0.8.1906.jar;C:\FIJI02\Fiji.app\jars\renjin-script-engine-0.8.1906.jar;C:\FIJI02\Fiji.app\jars\rhino-1.7.6.jar;C:\FIJI02\Fiji.app\jars\rsyntaxtextarea-2.6.1.jar;C:\FIJI02\Fiji.app\jars\scala-compiler-2.12.1.jar;C:\FIJI02\Fiji.app\jars\scala-library-2.12.1.jar;C:\FIJI02\Fiji.app\jars\scala-reflect-2.12.1.jar;C:\FIJI02\Fiji.app\jars\scala-xml_2.12-1.0.6.jar;C:\FIJI02\Fiji.app\jars\scifio-0.37.0.jar;C:\FIJI02\Fiji.app\jars\scifio-bf-compat-3.0.0.jar;C:\FIJI02\Fiji.app\jars\scifio-cli-0.5.0.jar;C:\FIJI02\Fiji.app\jars\scifio-hdf5-0.1.3.jar;C:\FIJI02\Fiji.app\jars\scifio-jai-imageio-1.1.1.jar;C:\FIJI02\Fiji.app\jars\scifio-lifesci-0.8.0.jar;C:\FIJI02\Fiji.app\jars\scifio-ome-xml-0.15.0.jar;C:\FIJI02\Fiji.app\jars\scijava-common-2.75.0.jar;C:\FIJI02\Fiji.app\jars\scijava-config-2.0.2.jar;C:\FIJI02\Fiji.app\jars\scijava-plugins-commands-0.2.3.jar;C:\FIJI02\Fiji.app\jars\scijava-plugins-platforms-0.3.1.jar;C:\FIJI02\Fiji.app\jars\scijava-plugins-text-markdown-0.1.3.jar;C:\FIJI02\Fiji.app\jars\scijava-plugins-text-plain-0.1.3.jar;C:\FIJI02\Fiji.app\jars\scijava-search-0.5.0.jar;C:\FIJI02\Fiji.app\jars\scijava-ui-awt-0.1.6.jar;C:\FIJI02\Fiji.app\jars\scijava-ui-swing-0.11.0.jar;C:\FIJI02\Fiji.app\jars\script-editor-0.3.0.jar;C:\FIJI02\Fiji.app\jars\scripting-beanshell-0.3.3.jar;C:\FIJI02\Fiji.app\jars\scripting-clojure-0.1.6.jar;C:\FIJI02\Fiji.app\jars\scripting-groovy-0.2.7.jar;C:\FIJI02\Fiji.app\jars\scripting-java-0.4.1.jar;C:\FIJI02\Fiji.app\jars\scripting-javascript-0.4.4.jar;C:\FIJI02\Fiji.app\jars\scripting-jruby-0.2.5.jar;C:\FIJI02\Fiji.app\jars\scripting-jython-0.4.2.jar;C:\FIJI02\Fiji.app\jars\scripting-renjin-0.2.2.jar;C:\FIJI02\Fiji.app\jars\scripting-scala-0.2.1.jar;C:\FIJI02\Fiji.app\jars\slf4j-api-1.7.25.jar;C:\FIJI02\Fiji.app\jars\snakeyaml-1.13.jar;C:\FIJI02\Fiji.app\jars\bio-formats\specification-5.6.3.jar;C:\FIJI02\Fiji.app\jars\spim_data-2.2.2.jar;C:\FIJI02\Fiji.app\jars\stats-0.8.1906.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\sunec.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\sunjce_provider.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\sunmscapi.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\sunpkcs11.jar;C:\FIJI02\Fiji.app\jars\swing-checkbox-tree-1.0.2.jar;C:\FIJI02\Fiji.app\jars\swing-worker-1.1.jar;C:\FIJI02\Fiji.app\jars\swingx-1.6.1.jar;C:\FIJI02\Fiji.app\jars\trakem2-transform-1.0.1.jar;C:\FIJI02\Fiji.app\plugins\trakem2_tps-1.1.4.jar;C:\FIJI02\Fiji.app\jars\trove4j-3.0.3.jar;C:\FIJI02\Fiji.app\jars\bio-formats\turbojpeg-5.9.3-20180905.101738-2.jar;C:\FIJI02\Fiji.app\jars\udunits-4.3.18.jar;C:\FIJI02\Fiji.app\jars\ui-behaviour-1.7.3.jar;C:\FIJI02\Fiji.app\jars\utils-0.8.1906.jar;C:\FIJI02\Fiji.app\jars\vecmath-1.6.0-scijava-2.jar;C:\FIJI02\Fiji.app\jars\weave_jy2java-2.1.0.jar;C:\FIJI02\Fiji.app\jars\weka-dev-3.9.2.jar;C:\FIJI02\Fiji.app\jars\xerbla-0.8.jar;C:\FIJI02\Fiji.app\jars\xercesImpl-2.8.1.jar;C:\FIJI02\Fiji.app\jars\xml-apis-ext-1.3.04.jar;C:\FIJI02\Fiji.app\jars\xmlgraphics-commons-2.3.jar;C:\FIJI02\Fiji.app\jars\xmpcore-5.1.2.jar;C:\FIJI02\Fiji.app\jars\xz-1.0.jar;C:\FIJI02\Fiji.app\jars\yecht-1.0.jar;C:\FIJI02\Fiji.app\plugins\z_spacing-1.0.3.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\zipfs.jar, -d, C:\Users\Jerad415\AppData\Local\Temp\java2688674633997011237\target\classes, C:\Users\Jerad415\AppData\Local\Temp\java2688674633997011237\src\main\java\Multi_OtsuThreshold.java]
using the class path: 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JI02\Fiji.app\jars\imagej-plugins-commands-0.8.0.jar;C:\FIJI02\Fiji.app\jars\imagej-plugins-tools-0.3.1.jar;C:\FIJI02\Fiji.app\jars\imagej-plugins-uploader-ssh-0.3.2.jar;C:\FIJI02\Fiji.app\jars\imagej-plugins-uploader-webdav-0.2.2.jar;C:\FIJI02\Fiji.app\jars\imagej-scripting-0.8.2.jar;C:\FIJI02\Fiji.app\jars\imagej-ui-awt-0.3.1.jar;C:\FIJI02\Fiji.app\jars\imagej-ui-swing-0.21.4.jar;C:\FIJI02\Fiji.app\jars\imagej-updater-0.9.2.jar;C:\FIJI02\Fiji.app\jars\imagescience.jar;C:\FIJI02\Fiji.app\jars\imglib2-5.3.0.jar;C:\FIJI02\Fiji.app\jars\imglib2-algorithm-0.9.0.jar;C:\FIJI02\Fiji.app\jars\imglib2-algorithm-fft-0.2.0.jar;C:\FIJI02\Fiji.app\jars\imglib2-algorithm-gpl-0.2.3.jar;C:\FIJI02\Fiji.app\jars\imglib2-cache-1.0.0-beta-9.jar;C:\FIJI02\Fiji.app\jars\imglib2-ij-2.0.0-beta-42.jar;C:\FIJI02\Fiji.app\jars\imglib2-realtransform-2.0.0.jar;C:\FIJI02\Fiji.app\jars\imglib2-roi-0.5.2.jar;C:\FIJI02\Fiji.app\jars\imglib2-ui-2.0.0.jar;C:\FIJI02\Fiji.app\jars\invokebinder-1.2.jar;C:\FIJI02\Fiji.app\jars\itextpdf-5.5.13.jar;C:\FIJI02\Fiji.app\jars\ivy-2.4.0.jar;C:\FIJI02\Fiji.app\jars\j3dcore-1.6.0-scijava-2.jar;C:\FIJI02\Fiji.app\jars\j3dutils-1.6.0-scijava-2.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\jaccess.jar;C:\FIJI02\Fiji.app\jars\jai-codec-1.1.3.jar;C:\FIJI02\Fiji.app\jars\jai-core-1.1.3.jar;C:\FIJI02\Fiji.app\jars\bio-formats\jai_imageio-5.1.10.jar;C:\FIJI02\Fiji.app\jars\jama-1.0.3.jar;C:\FIJI02\Fiji.app\jars\javacpp-0.11.jar;C:\FIJI02\Fiji.app\jars\javassist-3.22.0-GA.jar;C:\FIJI02\Fiji.app\jars\jcodings-1.0.10.jar;C:\FIJI02\Fiji.app\jars\jcommander-1.48.jar;C:\FIJI02\Fiji.app\jars\jcommon-1.0.24.jar;C:\FIJI02\Fiji.app\jars\jdatepicker-1.3.2.jar;C:\FIJI02\Fiji.app\jars\jdom2-2.0.6.jar;C:\FIJI02\Fiji.app\jars\jep-2.4.2.jar;C:\FIJI02\Fiji.app\jars\jffi-1.2.7-native.jar;C:\FIJI02\Fiji.app\jars\jffi-1.2.7.jar;C:\FIJI02\Fiji.app\jars\jfreechart-1.5.0.jar;C:\FIJI02\Fiji.app\jars\jfreesvg-3.2.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\jfxrt.jar;C:\FIJI02\Fiji.app\jars\jgoodies-common-1.7.0.jar;C:\FIJI02\Fiji.app\jars\jgoodies-forms-1.7.2.jar;C:\FIJI02\Fiji.app\jars\jgrapht-0.8.3.jar;C:\FIJI02\Fiji.app\jars\jgraphx-3.4.1.3.jar;C:\FIJI02\Fiji.app\jars\jhdf5-14.12.6.jar;C:\FIJI02\Fiji.app\jars\jhotdraw-7.6.0.jar;C:\FIJI02\Fiji.app\jars\jide-oss-3.6.18.jar;C:\FIJI02\Fiji.app\jars\jitk-tps-3.0.0.jar;C:\FIJI02\Fiji.app\jars\jna-4.5.1.jar;C:\FIJI02\Fiji.app\jars\jnr-constants-0.8.5.jar;C:\FIJI02\Fiji.app\jars\jnr-enxio-0.4.jar;C:\FIJI02\Fiji.app\jars\jnr-ffi-1.0.7.jar;C:\FIJI02\Fiji.app\jars\jnr-netdb-1.1.2.jar;C:\FIJI02\Fiji.app\jars\jnr-posix-3.0.1.jar;C:\FIJI02\Fiji.app\jars\jnr-unixsocket-0.3.jar;C:\FIJI02\Fiji.app\jars\jnr-x86asm-1.0.2.jar;C:\FIJI02\Fiji.app\jars\joal-2.3.2.jar;C:\FIJI02\Fiji.app\jars\win64\joal-2.3.2-natives-windows-amd64.jar;C:\FIJI02\Fiji.app\jars\joal-main-2.3.2.jar;C:\FIJI02\Fiji.app\jars\jocl-2.3.2.jar;C:\FIJI02\Fiji.app\jars\win64\jocl-2.3.2-natives-windows-amd64.jar;C:\FIJI02\Fiji.app\jars\jocl-main-2.3.2.jar;C:\FIJI02\Fiji.app\jars\joda-time-2.10.jar;C:\FIJI02\Fiji.app\jars\jogl-all-2.3.2.jar;C:\FIJI02\Fiji.app\jars\win64\jogl-all-2.3.2-natives-windows-amd64.jar;C:\FIJI02\Fiji.app\jars\jogl-all-main-2.3.2.jar;C:\FIJI02\Fiji.app\jars\joml-1.9.9.jar;C:\FIJI02\Fiji.app\jars\joni-2.1.1.jar;C:\FIJI02\Fiji.app\jars\jpedalSTD-2.80b11.jar;C:\FIJI02\Fiji.app\jars\jruby-core-1.7.12.jar;C:\FIJI02\Fiji.app\jars\jruby-stdlib-1.7.12.jar;C:\FIJI02\Fiji.app\jars\jsch-0.1.54.jar;C:\FIJI02\Fiji.app\jars\json-20180813.jar;C:\FIJI02\Fiji.app\jars\jsoup-1.7.2.jar;C:\FIJI02\Fiji.app\jars\jsr166y-1.7.0.jar;C:\FIJI02\Fiji.app\jars\jtransforms-2.4.jar;C:\FIJI02\Fiji.app\jars\jung-api-2.0.1.jar;C:\FIJI02\Fiji.app\jars\jung-graph-impl-2.0.1.jar;C:\FIJI02\Fiji.app\jars\bio-formats\jxrlib-all-0.2.1.jar;C:\FIJI02\Fiji.app\jars\jython-shaded-2.7.1.jar;C:\FIJI02\Fiji.app\jars\jzlib-1.1.3.jar;C:\FIJI02\Fiji.app\jars\kryo-2.24.0.jar;C:\FIJI02\Fiji.app\jars\languagesupport-2.6.0.jar;C:\FIJI02\Fiji.app\jars\lapack-0.8.jar;C:\FIJI02\Fiji.app\jars\legacy-imglib1-1.1.9.jar;C:\FIJI02\Fiji.app\plugins\level_sets-1.0.2.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\localedata.jar;C:\FIJI02\Fiji.app\jars\log4j-1.2.17.jar;C:\FIJI02\Fiji.app\jars\logback-classic-1.2.3.jar;C:\FIJI02\Fiji.app\jars\logback-core-1.2.3.jar;C:\FIJI02\Fiji.app\jars\mapdb-1.0.3.jar;C:\FIJI02\Fiji.app\jars\markdownj-0.3.0-1.0.2b4.jar;C:\FIJI02\Fiji.app\jars\maven-scm-api-1.4.jar;C:\FIJI02\Fiji.app\jars\maven-scm-provider-svn-commons-1.4.jar;C:\FIJI02\Fiji.app\jars\maven-scm-provider-svnexe-1.4.jar;C:\FIJI02\Fiji.app\plugins\mcib3d-suite\mcib3d-core.jar;C:\FIJI02\Fiji.app\plugins\mcib3d-suite\mcib3d_plugins.jar;C:\FIJI02\Fiji.app\jars\metadata-extractor-2.6.2.jar;C:\FIJI02\Fiji.app\jars\bio-formats\metakit-5.3.2.jar;C:\FIJI02\Fiji.app\jars\methods-0.8.1906.jar;C:\FIJI02\Fiji.app\jars\miglayout-3.7.4-swing.jar;C:\FIJI02\Fiji.app\jars\mines-jtk-20151125.jar;C:\FIJI02\Fiji.app\jars\minimaven-2.2.1.jar;C:\FIJI02\Fiji.app\jars\minlog-1.2.jar;C:\FIJI02\Fiji.app\plugins\Morphology\morphology_collection.jar;C:\FIJI02\Fiji.app\jars\mpicbg-1.2.0.jar;C:\FIJI02\Fiji.app\plugins\mpicbg_-1.2.0.jar;C:\FIJI02\Fiji.app\jars\mtj-1.0.4.jar;C:\FIJI02\Fiji.app\jars\multiverse-core-0.7.0.jar;C:\FIJI02\Fiji.app\jars\nailgun-server-0.9.1.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\nashorn.jar;C:\FIJI02\Fiji.app\jars\native-lib-loader-2.3.1.jar;C:\FIJI02\Fiji.app\jars\netcdf-4.3.22.jar;C:\FIJI02\Fiji.app\jars\netlib-java-0.9.3-renjin-patched-2.jar;C:\FIJI02\Fiji.app\jars\object-inspector-0.1.jar;C:\FIJI02\Fiji.app\jars\objenesis-2.1.jar;C:\FIJI02\Fiji.app\jars\ojalgo-45.1.1.jar;C:\FIJI02\Fiji.app\jars\okhttp-3.11.0.jar;C:\FIJI02\Fiji.app\jars\okio-1.14.0.jar;C:\FIJI02\Fiji.app\jars\bio-formats\ome-codecs-0.2.2.jar;C:\FIJI02\Fiji.app\jars\bio-formats\ome-common-5.3.6.jar;C:\FIJI02\Fiji.app\jars\bio-formats\ome-jai-0.1.0.jar;C:\FIJI02\Fiji.app\jars\bio-formats\ome-mdbtools-5.3.2.jar;C:\FIJI02\Fiji.app\jars\bio-formats\ome-poi-5.3.3.jar;C:\FIJI02\Fiji.app\jars\bio-formats\ome-xml-5.6.3.jar;C:\FIJI02\Fiji.app\jars\op-finder-0.1.3.jar;C:\FIJI02\Fiji.app\jars\opencsv-3.9.jar;C:\FIJI02\Fiji.app\jars\options-1.1.jar;C:\FIJI02\Fiji.app\jars\pal-optimization-2.0.1.jar;C:\FIJI02\Fiji.app\plugins\panorama_-3.0.2.jar;C:\FIJI02\Fiji.app\jars\parsington-1.0.2.jar;C:\FIJI02\Fiji.app\jars\perf4j-0.9.13.jar;C:\FIJI02\Fiji.app\jars\plexus-utils-1.5.6.jar;C:\FIJI02\Fiji.app\jars\postgresql-9.1-901-1.jdbc4.jar;C:\FIJI02\Fiji.app\jars\prettytime-4.0.1.Final.jar;C:\FIJI02\Fiji.app\plugins\mcib3d-suite\quickhull3d-1.0.0.jar;C:\FIJI02\Fiji.app\jars\regexp-1.3.jar;C:\FIJI02\Fiji.app\plugins\register_virtual_stack_slices-3.0.5.jar;C:\FIJI02\Fiji.app\plugins\registration_3d-2.0.1.jar;C:\FIJI02\Fiji.app\jars\renjin-appl-0.8.1906.jar;C:\FIJI02\Fiji.app\jars\renjin-core-0.8.1906.jar;C:\FIJI02\Fiji.app\jars\renjin-gnur-runtime-0.8.1906.jar;C:\FIJI02\Fiji.app\jars\renjin-script-engine-0.8.1906.jar;C:\FIJI02\Fiji.app\jars\rhino-1.7.6.jar;C:\FIJI02\Fiji.app\jars\rsyntaxtextarea-2.6.1.jar;C:\FIJI02\Fiji.app\jars\scala-compiler-2.12.1.jar;C:\FIJI02\Fiji.app\jars\scala-library-2.12.1.jar;C:\FIJI02\Fiji.app\jars\scala-reflect-2.12.1.jar;C:\FIJI02\Fiji.app\jars\scala-xml_2.12-1.0.6.jar;C:\FIJI02\Fiji.app\jars\scifio-0.37.0.jar;C:\FIJI02\Fiji.app\jars\scifio-bf-compat-3.0.0.jar;C:\FIJI02\Fiji.app\jars\scifio-cli-0.5.0.jar;C:\FIJI02\Fiji.app\jars\scifio-hdf5-0.1.3.jar;C:\FIJI02\Fiji.app\jars\scifio-jai-imageio-1.1.1.jar;C:\FIJI02\Fiji.app\jars\scifio-lifesci-0.8.0.jar;C:\FIJI02\Fiji.app\jars\scifio-ome-xml-0.15.0.jar;C:\FIJI02\Fiji.app\jars\scijava-common-2.75.0.jar;C:\FIJI02\Fiji.app\jars\scijava-config-2.0.2.jar;C:\FIJI02\Fiji.app\jars\scijava-plugins-commands-0.2.3.jar;C:\FIJI02\Fiji.app\jars\scijava-plugins-platforms-0.3.1.jar;C:\FIJI02\Fiji.app\jars\scijava-plugins-text-markdown-0.1.3.jar;C:\FIJI02\Fiji.app\jars\scijava-plugins-text-plain-0.1.3.jar;C:\FIJI02\Fiji.app\jars\scijava-search-0.5.0.jar;C:\FIJI02\Fiji.app\jars\scijava-ui-awt-0.1.6.jar;C:\FIJI02\Fiji.app\jars\scijava-ui-swing-0.11.0.jar;C:\FIJI02\Fiji.app\jars\script-editor-0.3.0.jar;C:\FIJI02\Fiji.app\jars\scripting-beanshell-0.3.3.jar;C:\FIJI02\Fiji.app\jars\scripting-clojure-0.1.6.jar;C:\FIJI02\Fiji.app\jars\scripting-groovy-0.2.7.jar;C:\FIJI02\Fiji.app\jars\scripting-java-0.4.1.jar;C:\FIJI02\Fiji.app\jars\scripting-javascript-0.4.4.jar;C:\FIJI02\Fiji.app\jars\scripting-jruby-0.2.5.jar;C:\FIJI02\Fiji.app\jars\scripting-jython-0.4.2.jar;C:\FIJI02\Fiji.app\jars\scripting-renjin-0.2.2.jar;C:\FIJI02\Fiji.app\jars\scripting-scala-0.2.1.jar;C:\FIJI02\Fiji.app\jars\slf4j-api-1.7.25.jar;C:\FIJI02\Fiji.app\jars\snakeyaml-1.13.jar;C:\FIJI02\Fiji.app\jars\bio-formats\specification-5.6.3.jar;C:\FIJI02\Fiji.app\jars\spim_data-2.2.2.jar;C:\FIJI02\Fiji.app\jars\stats-0.8.1906.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\sunec.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\sunjce_provider.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\sunmscapi.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\sunpkcs11.jar;C:\FIJI02\Fiji.app\jars\swing-checkbox-tree-1.0.2.jar;C:\FIJI02\Fiji.app\jars\swing-worker-1.1.jar;C:\FIJI02\Fiji.app\jars\swingx-1.6.1.jar;C:\FIJI02\Fiji.app\jars\trakem2-transform-1.0.1.jar;C:\FIJI02\Fiji.app\plugins\trakem2_tps-1.1.4.jar;C:\FIJI02\Fiji.app\jars\trove4j-3.0.3.jar;C:\FIJI02\Fiji.app\jars\bio-formats\turbojpeg-5.9.3-20180905.101738-2.jar;C:\FIJI02\Fiji.app\jars\udunits-4.3.18.jar;C:\FIJI02\Fiji.app\jars\ui-behaviour-1.7.3.jar;C:\FIJI02\Fiji.app\jars\utils-0.8.1906.jar;C:\FIJI02\Fiji.app\jars\vecmath-1.6.0-scijava-2.jar;C:\FIJI02\Fiji.app\jars\weave_jy2java-2.1.0.jar;C:\FIJI02\Fiji.app\jars\weka-dev-3.9.2.jar;C:\FIJI02\Fiji.app\jars\xerbla-0.8.jar;C:\FIJI02\Fiji.app\jars\xercesImpl-2.8.1.jar;C:\FIJI02\Fiji.app\jars\xml-apis-ext-1.3.04.jar;C:\FIJI02\Fiji.app\jars\xmlgraphics-commons-2.3.jar;C:\FIJI02\Fiji.app\jars\xmpcore-5.1.2.jar;C:\FIJI02\Fiji.app\jars\xz-1.0.jar;C:\FIJI02\Fiji.app\jars\yecht-1.0.jar;C:\FIJI02\Fiji.app\plugins\z_spacing-1.0.3.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\zipfs.jar
No javax.tools.JavaCompiler available. Checking for explicit javac.
No javac.jar found (looked in C:\FIJI02\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:331)
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:160)
at org.scijava.module.ModuleRunner.run(ModuleRunner.java:168)
at org.scijava.module.ModuleRunner.call(ModuleRunner.java:127)
at org.scijava.module.ModuleRunner.call(ModuleRunner.java:66)
at org.scijava.thread.DefaultThreadService$3.call(DefaultThreadService.java:238)
at java.util.concurrent.FutureTask.run(FutureTask.java:266)
at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1142)
at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:617)
at java.lang.Thread.run(Thread.java:745)
Could not find javac java.lang.ClassNotFoundException: com.sun.tools.javac.Main, falling back to system javac
Executing: 'javac' '-classpath' 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IJI02\Fiji.app\jars\imagej-plugins-commands-0.8.0.jar;C:\FIJI02\Fiji.app\jars\imagej-plugins-tools-0.3.1.jar;C:\FIJI02\Fiji.app\jars\imagej-plugins-uploader-ssh-0.3.2.jar;C:\FIJI02\Fiji.app\jars\imagej-plugins-uploader-webdav-0.2.2.jar;C:\FIJI02\Fiji.app\jars\imagej-scripting-0.8.2.jar;C:\FIJI02\Fiji.app\jars\imagej-ui-awt-0.3.1.jar;C:\FIJI02\Fiji.app\jars\imagej-ui-swing-0.21.4.jar;C:\FIJI02\Fiji.app\jars\imagej-updater-0.9.2.jar;C:\FIJI02\Fiji.app\jars\imagescience.jar;C:\FIJI02\Fiji.app\jars\imglib2-5.3.0.jar;C:\FIJI02\Fiji.app\jars\imglib2-algorithm-0.9.0.jar;C:\FIJI02\Fiji.app\jars\imglib2-algorithm-fft-0.2.0.jar;C:\FIJI02\Fiji.app\jars\imglib2-algorithm-gpl-0.2.3.jar;C:\FIJI02\Fiji.app\jars\imglib2-cache-1.0.0-beta-9.jar;C:\FIJI02\Fiji.app\jars\imglib2-ij-2.0.0-beta-42.jar;C:\FIJI02\Fiji.app\jars\imglib2-realtransform-2.0.0.jar;C:\FIJI02\Fiji.app\jars\imglib2-roi-0.5.2.jar;C:\FIJI02\Fiji.app\jars\imglib2-ui-2.0.0.jar;C:\FIJI02\Fiji.app\jars\invokebinder-1.2.jar;C:\FIJI02\Fiji.app\jars\itextpdf-5.5.13.jar;C:\FIJI02\Fiji.app\jars\ivy-2.4.0.jar;C:\FIJI02\Fiji.app\jars\j3dcore-1.6.0-scijava-2.jar;C:\FIJI02\Fiji.app\jars\j3dutils-1.6.0-scijava-2.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\jaccess.jar;C:\FIJI02\Fiji.app\jars\jai-codec-1.1.3.jar;C:\FIJI02\Fiji.app\jars\jai-core-1.1.3.jar;C:\FIJI02\Fiji.app\jars\bio-formats\jai_imageio-5.1.10.jar;C:\FIJI02\Fiji.app\jars\jama-1.0.3.jar;C:\FIJI02\Fiji.app\jars\javacpp-0.11.jar;C:\FIJI02\Fiji.app\jars\javassist-3.22.0-GA.jar;C:\FIJI02\Fiji.app\jars\jcodings-1.0.10.jar;C:\FIJI02\Fiji.app\jars\jcommander-1.48.jar;C:\FIJI02\Fiji.app\jars\jcommon-1.0.24.jar;C:\FIJI02\Fiji.app\jars\jdatepicker-1.3.2.jar;C:\FIJI02\Fiji.app\jars\jdom2-2.0.6.jar;C:\FIJI02\Fiji.app\jars\jep-2.4.2.jar;C:\FIJI02\Fiji.app\jars\jffi-1.2.7-native.jar;C:\FIJI02\Fiji.app\jars\jffi-1.2.7.jar;C:\FIJI02\Fiji.app\jars\jfreechart-1.5.0.jar;C:\FIJI02\Fiji.app\jars\jfreesvg-3.2.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\jfxrt.jar;C:\FIJI02\Fiji.app\jars\jgoodies-common-1.7.0.jar;C:\FIJI02\Fiji.app\jars\jgoodies-forms-1.7.2.jar;C:\FIJI02\Fiji.app\jars\jgrapht-0.8.3.jar;C:\FIJI02\Fiji.app\jars\jgraphx-3.4.1.3.jar;C:\FIJI02\Fiji.app\jars\jhdf5-14.12.6.jar;C:\FIJI02\Fiji.app\jars\jhotdraw-7.6.0.jar;C:\FIJI02\Fiji.app\jars\jide-oss-3.6.18.jar;C:\FIJI02\Fiji.app\jars\jitk-tps-3.0.0.jar;C:\FIJI02\Fiji.app\jars\jna-4.5.1.jar;C:\FIJI02\Fiji.app\jars\jnr-constants-0.8.5.jar;C:\FIJI02\Fiji.app\jars\jnr-enxio-0.4.jar;C:\FIJI02\Fiji.app\jars\jnr-ffi-1.0.7.jar;C:\FIJI02\Fiji.app\jars\jnr-netdb-1.1.2.jar;C:\FIJI02\Fiji.app\jars\jnr-posix-3.0.1.jar;C:\FIJI02\Fiji.app\jars\jnr-unixsocket-0.3.jar;C:\FIJI02\Fiji.app\jars\jnr-x86asm-1.0.2.jar;C:\FIJI02\Fiji.app\jars\joal-2.3.2.jar;C:\FIJI02\Fiji.app\jars\win64\joal-2.3.2-natives-windows-amd64.jar;C:\FIJI02\Fiji.app\jars\joal-main-2.3.2.jar;C:\FIJI02\Fiji.app\jars\jocl-2.3.2.jar;C:\FIJI02\Fiji.app\jars\win64\jocl-2.3.2-natives-windows-amd64.jar;C:\FIJI02\Fiji.app\jars\jocl-main-2.3.2.jar;C:\FIJI02\Fiji.app\jars\joda-time-2.10.jar;C:\FIJI02\Fiji.app\jars\jogl-all-2.3.2.jar;C:\FIJI02\Fiji.app\jars\win64\jogl-all-2.3.2-natives-windows-amd64.jar;C:\FIJI02\Fiji.app\jars\jogl-all-main-2.3.2.jar;C:\FIJI02\Fiji.app\jars\joml-1.9.9.jar;C:\FIJI02\Fiji.app\jars\joni-2.1.1.jar;C:\FIJI02\Fiji.app\jars\jpedalSTD-2.80b11.jar;C:\FIJI02\Fiji.app\jars\jruby-core-1.7.12.jar;C:\FIJI02\Fiji.app\jars\jruby-stdlib-1.7.12.jar;C:\FIJI02\Fiji.app\jars\jsch-0.1.54.jar;C:\FIJI02\Fiji.app\jars\json-20180813.jar;C:\FIJI02\Fiji.app\jars\jsoup-1.7.2.jar;C:\FIJI02\Fiji.app\jars\jsr166y-1.7.0.jar;C:\FIJI02\Fiji.app\jars\jtransforms-2.4.jar;C:\FIJI02\Fiji.app\jars\jung-api-2.0.1.jar;C:\FIJI02\Fiji.app\jars\jung-graph-impl-2.0.1.jar;C:\FIJI02\Fiji.app\jars\bio-formats\jxrlib-all-0.2.1.jar;C:\FIJI02\Fiji.app\jars\jython-shaded-2.7.1.jar;C:\FIJI02\Fiji.app\jars\jzlib-1.1.3.jar;C:\FIJI02\Fiji.app\jars\kryo-2.24.0.jar;C:\FIJI02\Fiji.app\jars\languagesupport-2.6.0.jar;C:\FIJI02\Fiji.app\jars\lapack-0.8.jar;C:\FIJI02\Fiji.app\jars\legacy-imglib1-1.1.9.jar;C:\FIJI02\Fiji.app\plugins\level_sets-1.0.2.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\localedata.jar;C:\FIJI02\Fiji.app\jars\log4j-1.2.17.jar;C:\FIJI02\Fiji.app\jars\logback-classic-1.2.3.jar;C:\FIJI02\Fiji.app\jars\logback-core-1.2.3.jar;C:\FIJI02\Fiji.app\jars\mapdb-1.0.3.jar;C:\FIJI02\Fiji.app\jars\markdownj-0.3.0-1.0.2b4.jar;C:\FIJI02\Fiji.app\jars\maven-scm-api-1.4.jar;C:\FIJI02\Fiji.app\jars\maven-scm-provider-svn-commons-1.4.jar;C:\FIJI02\Fiji.app\jars\maven-scm-provider-svnexe-1.4.jar;C:\FIJI02\Fiji.app\plugins\mcib3d-suite\mcib3d-core.jar;C:\FIJI02\Fiji.app\plugins\mcib3d-suite\mcib3d_plugins.jar;C:\FIJI02\Fiji.app\jars\metadata-extractor-2.6.2.jar;C:\FIJI02\Fiji.app\jars\bio-formats\metakit-5.3.2.jar;C:\FIJI02\Fiji.app\jars\methods-0.8.1906.jar;C:\FIJI02\Fiji.app\jars\miglayout-3.7.4-swing.jar;C:\FIJI02\Fiji.app\jars\mines-jtk-20151125.jar;C:\FIJI02\Fiji.app\jars\minimaven-2.2.1.jar;C:\FIJI02\Fiji.app\jars\minlog-1.2.jar;C:\FIJI02\Fiji.app\plugins\Morphology\morphology_collection.jar;C:\FIJI02\Fiji.app\jars\mpicbg-1.2.0.jar;C:\FIJI02\Fiji.app\plugins\mpicbg_-1.2.0.jar;C:\FIJI02\Fiji.app\jars\mtj-1.0.4.jar;C:\FIJI02\Fiji.app\jars\multiverse-core-0.7.0.jar;C:\FIJI02\Fiji.app\jars\nailgun-server-0.9.1.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\nashorn.jar;C:\FIJI02\Fiji.app\jars\native-lib-loader-2.3.1.jar;C:\FIJI02\Fiji.app\jars\netcdf-4.3.22.jar;C:\FIJI02\Fiji.app\jars\netlib-java-0.9.3-renjin-patched-2.jar;C:\FIJI02\Fiji.app\jars\object-inspector-0.1.jar;C:\FIJI02\Fiji.app\jars\objenesis-2.1.jar;C:\FIJI02\Fiji.app\jars\ojalgo-45.1.1.jar;C:\FIJI02\Fiji.app\jars\okhttp-3.11.0.jar;C:\FIJI02\Fiji.app\jars\okio-1.14.0.jar;C:\FIJI02\Fiji.app\jars\bio-formats\ome-codecs-0.2.2.jar;C:\FIJI02\Fiji.app\jars\bio-formats\ome-common-5.3.6.jar;C:\FIJI02\Fiji.app\jars\bio-formats\ome-jai-0.1.0.jar;C:\FIJI02\Fiji.app\jars\bio-formats\ome-mdbtools-5.3.2.jar;C:\FIJI02\Fiji.app\jars\bio-formats\ome-poi-5.3.3.jar;C:\FIJI02\Fiji.app\jars\bio-formats\ome-xml-5.6.3.jar;C:\FIJI02\Fiji.app\jars\op-finder-0.1.3.jar;C:\FIJI02\Fiji.app\jars\opencsv-3.9.jar;C:\FIJI02\Fiji.app\jars\options-1.1.jar;C:\FIJI02\Fiji.app\jars\pal-optimization-2.0.1.jar;C:\FIJI02\Fiji.app\plugins\panorama_-3.0.2.jar;C:\FIJI02\Fiji.app\jars\parsington-1.0.2.jar;C:\FIJI02\Fiji.app\jars\perf4j-0.9.13.jar;C:\FIJI02\Fiji.app\jars\plexus-utils-1.5.6.jar;C:\FIJI02\Fiji.app\jars\postgresql-9.1-901-1.jdbc4.jar;C:\FIJI02\Fiji.app\jars\prettytime-4.0.1.Final.jar;C:\FIJI02\Fiji.app\plugins\mcib3d-suite\quickhull3d-1.0.0.jar;C:\FIJI02\Fiji.app\jars\regexp-1.3.jar;C:\FIJI02\Fiji.app\plugins\register_virtual_stack_slices-3.0.5.jar;C:\FIJI02\Fiji.app\plugins\registration_3d-2.0.1.jar;C:\FIJI02\Fiji.app\jars\renjin-appl-0.8.1906.jar;C:\FIJI02\Fiji.app\jars\renjin-core-0.8.1906.jar;C:\FIJI02\Fiji.app\jars\renjin-gnur-runtime-0.8.1906.jar;C:\FIJI02\Fiji.app\jars\renjin-script-engine-0.8.1906.jar;C:\FIJI02\Fiji.app\jars\rhino-1.7.6.jar;C:\FIJI02\Fiji.app\jars\rsyntaxtextarea-2.6.1.jar;C:\FIJI02\Fiji.app\jars\scala-compiler-2.12.1.jar;C:\FIJI02\Fiji.app\jars\scala-library-2.12.1.jar;C:\FIJI02\Fiji.app\jars\scala-reflect-2.12.1.jar;C:\FIJI02\Fiji.app\jars\scala-xml_2.12-1.0.6.jar;C:\FIJI02\Fiji.app\jars\scifio-0.37.0.jar;C:\FIJI02\Fiji.app\jars\scifio-bf-compat-3.0.0.jar;C:\FIJI02\Fiji.app\jars\scifio-cli-0.5.0.jar;C:\FIJI02\Fiji.app\jars\scifio-hdf5-0.1.3.jar;C:\FIJI02\Fiji.app\jars\scifio-jai-imageio-1.1.1.jar;C:\FIJI02\Fiji.app\jars\scifio-lifesci-0.8.0.jar;C:\FIJI02\Fiji.app\jars\scifio-ome-xml-0.15.0.jar;C:\FIJI02\Fiji.app\jars\scijava-common-2.75.0.jar;C:\FIJI02\Fiji.app\jars\scijava-config-2.0.2.jar;C:\FIJI02\Fiji.app\jars\scijava-plugins-commands-0.2.3.jar;C:\FIJI02\Fiji.app\jars\scijava-plugins-platforms-0.3.1.jar;C:\FIJI02\Fiji.app\jars\scijava-plugins-text-markdown-0.1.3.jar;C:\FIJI02\Fiji.app\jars\scijava-plugins-text-plain-0.1.3.jar;C:\FIJI02\Fiji.app\jars\scijava-search-0.5.0.jar;C:\FIJI02\Fiji.app\jars\scijava-ui-awt-0.1.6.jar;C:\FIJI02\Fiji.app\jars\scijava-ui-swing-0.11.0.jar;C:\FIJI02\Fiji.app\jars\script-editor-0.3.0.jar;C:\FIJI02\Fiji.app\jars\scripting-beanshell-0.3.3.jar;C:\FIJI02\Fiji.app\jars\scripting-clojure-0.1.6.jar;C:\FIJI02\Fiji.app\jars\scripting-groovy-0.2.7.jar;C:\FIJI02\Fiji.app\jars\scripting-java-0.4.1.jar;C:\FIJI02\Fiji.app\jars\scripting-javascript-0.4.4.jar;C:\FIJI02\Fiji.app\jars\scripting-jruby-0.2.5.jar;C:\FIJI02\Fiji.app\jars\scripting-jython-0.4.2.jar;C:\FIJI02\Fiji.app\jars\scripting-renjin-0.2.2.jar;C:\FIJI02\Fiji.app\jars\scripting-scala-0.2.1.jar;C:\FIJI02\Fiji.app\jars\slf4j-api-1.7.25.jar;C:\FIJI02\Fiji.app\jars\snakeyaml-1.13.jar;C:\FIJI02\Fiji.app\jars\bio-formats\specification-5.6.3.jar;C:\FIJI02\Fiji.app\jars\spim_data-2.2.2.jar;C:\FIJI02\Fiji.app\jars\stats-0.8.1906.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\sunec.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\sunjce_provider.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\sunmscapi.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\sunpkcs11.jar;C:\FIJI02\Fiji.app\jars\swing-checkbox-tree-1.0.2.jar;C:\FIJI02\Fiji.app\jars\swing-worker-1.1.jar;C:\FIJI02\Fiji.app\jars\swingx-1.6.1.jar;C:\FIJI02\Fiji.app\jars\trakem2-transform-1.0.1.jar;C:\FIJI02\Fiji.app\plugins\trakem2_tps-1.1.4.jar;C:\FIJI02\Fiji.app\jars\trove4j-3.0.3.jar;C:\FIJI02\Fiji.app\jars\bio-formats\turbojpeg-5.9.3-20180905.101738-2.jar;C:\FIJI02\Fiji.app\jars\udunits-4.3.18.jar;C:\FIJI02\Fiji.app\jars\ui-behaviour-1.7.3.jar;C:\FIJI02\Fiji.app\jars\utils-0.8.1906.jar;C:\FIJI02\Fiji.app\jars\vecmath-1.6.0-scijava-2.jar;C:\FIJI02\Fiji.app\jars\weave_jy2java-2.1.0.jar;C:\FIJI02\Fiji.app\jars\weka-dev-3.9.2.jar;C:\FIJI02\Fiji.app\jars\xerbla-0.8.jar;C:\FIJI02\Fiji.app\jars\xercesImpl-2.8.1.jar;C:\FIJI02\Fiji.app\jars\xml-apis-ext-1.3.04.jar;C:\FIJI02\Fiji.app\jars\xmlgraphics-commons-2.3.jar;C:\FIJI02\Fiji.app\jars\xmpcore-5.1.2.jar;C:\FIJI02\Fiji.app\jars\xz-1.0.jar;C:\FIJI02\Fiji.app\jars\yecht-1.0.jar;C:\FIJI02\Fiji.app\plugins\z_spacing-1.0.3.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\zipfs.jar' '-d' 'C:\Users\Jerad415\AppData\Local\Temp\java2688674633997011237\target\classes' 'C:\Users\Jerad415\AppData\Local\Temp\java2688674633997011237\src\main\java\Multi_OtsuThreshold.java'
[ERROR] null









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Re: Multi Otsu Threshold

Gabriel Landini
On Tuesday, 20 November 2018 10:19:47 GMT you wrote:
> I have been happily using the
> Multi Otsu Theshold in Imagej - it is useful when histogram based
> segmentation is faced with multiple peaks.  But while I can install it in
> FIJI, it crashes - see below
>
> How can I fix this or alternatively is there an equivalent plugin that I
> could use ?

Hi Jeremy, have you tried compiling the java file in ImageJ and then just copy
the class files to Fiji (not the java file)?
I seem to remember that if you copy java files to Fiji, then it tries to
recompile them, causing some problems.

Cheers

Gabriel

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Re: Multi Otsu Threshold

Herbie
In reply to this post by Jeremy Adler
Good day Jeremy,

I've just downloaded this plugin from here
<https://imagej.nih.gov/ij/plugins/download/Multi_OtsuThreshold.java>

then compiled and it runs perfectly with plain ImageJ (version 1.52h,
Java 1.8.0_172, macOS 10.11.6)

Regards

Herbie

::::::::::::::::::::::::::::::::::::::::::
Am 20.11.18 um 11:19 schrieb Jeremy Adler:
> I have been happily using the
> Multi Otsu Theshold in Imagej - it is useful when histogram based segmentation is faced with multiple peaks.
> But while I can install it in FIJI, it crashes - see below
>
> How can I fix this or alternatively is there an equivalent plugin that I could use ?
>
> Jeremy Adler
> BioVis
> Uppsala U

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Re: Multi Otsu Threshold

Jan Eglinger
In reply to this post by Jeremy Adler
Hi Jeremy,

by default, Fiji comes bundled with a Java Runtime Environment (JRE)
only, but not with a Java Development Kit (JDK), and therefore does not
include a Java compiler.

You can tell Fiji to use your system JDK by simply removing/renaming the
Fiji.app\java\ folder (e.g. rename to 'java-old'). If you have a JDK
installed, compiling should just work then.

But as mentioned by Gabriel, if you have a .class file already, it might
be simpler to just put the .class file into Fiji.app\plugins\

Cheers
Jan


On 20.11.2018 11:19, Jeremy Adler wrote:

> I have been happily using the
> Multi Otsu Theshold in Imagej - it is useful when histogram based segmentation is faced with multiple peaks.
> But while I can install it in FIJI, it crashes - see below
>
> How can I fix this or alternatively is there an equivalent plugin that I could use ?
>
> Jeremy Adler
> BioVis
> Uppsala U
>
>
>
> Multi_OtsuThreshold not up-to-date because 1 source files are not up-to-date (C:\Users\Jerad415\AppData\Local\Temp\java2688674633997011237\src\main\java\Multi_OtsuThreshold.java)
> Compiling 1 file in C:\Users\Jerad415\AppData\Local\Temp\java2688674633997011237
> [-classpath, 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JI02\Fiji.app\jars\imagej-plugins-commands-0.8.0.jar;C:\FIJI02\Fiji.app\jars\imagej-plugins-tools-0.3.1.jar;C:\FIJI02\Fiji.app\jars\imagej-plugins-uploader-ssh-0.3.2.jar;C:\FIJI02\Fiji.app\jars\imagej-plugins-uploader-webdav-0.2.2.jar;C:\FIJI02\Fiji.app\jars\imagej-scripting-0.8.2.jar;C:\FIJI02\Fiji.app\jars\imagej-ui-awt-0.3.1.jar;C:\FIJI02\Fiji.app\jars\imagej-ui-swing-0.21.4.jar;C:\FIJI02\Fiji.app\jars\imagej-updater-0.9.2.jar;C:\FIJI02\Fiji.app\jars\imagescience.jar;C:\FIJI02\Fiji.app\jars\imglib2-5.3.0.jar;C:\FIJI02\Fiji.app\jars\imglib2-algorithm-0.9.0.jar;C:\FIJI02\Fiji.app\jars\imglib2-algorithm-fft-0.2.0.jar;C:\FIJI02\Fiji.app\jars\imglib2-algorithm-gpl-0.2.3.jar;C:\FIJI02\Fiji.app\jars\imglib2-cache-1.0.0-beta-9.jar;C:\FIJI02\Fiji.app\jars\imglib2-ij-2.0.0-beta-42.jar;C:\FIJI02\Fiji.app\jars\imglib2-realtransform-2.0.0.jar;C:\FIJI02\Fiji.app\jars\imglib2-roi-0.5.2.jar;C:\FIJI02\Fiji.app\jars\imglib2-ui-2.0.0.jar;C:\FIJI02\Fiji.app\jars\invokebinder-1.2.jar;C:\FIJI02\Fiji.app\jars\itextpdf-5.5.13.jar;C:\FIJI02\Fiji.app\jars\ivy-2.4.0.jar;C:\FIJI02\Fiji.app\jars\j3dcore-1.6.0-scijava-2.jar;C:\FIJI02\Fiji.app\jars\j3dutils-1.6.0-scijava-2.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\jaccess.jar;C:\FIJI02\Fiji.app\jars\jai-codec-1.1.3.jar;C:\FIJI02\Fiji.app\jars\jai-core-1.1.3.jar;C:\FIJI02\Fiji.app\jars\bio-formats\jai_imageio-5.1.10.jar;C:\FIJI02\Fiji.app\jars\jama-1.0.3.jar;C:\FIJI02\Fiji.app\jars\javacpp-0.11.jar;C:\FIJI02\Fiji.app\jars\javassist-3.22.0-GA.jar;C:\FIJI02\Fiji.app\jars\jcodings-1.0.10.jar;C:\FIJI02\Fiji.app\jars\jcommander-1.48.jar;C:\FIJI02\Fiji.app\jars\jcommon-1.0.24.jar;C:\FIJI02\Fiji.app\jars\jdatepicker-1.3.2.jar;C:\FIJI02\Fiji.app\jars\jdom2-2.0.6.jar;C:\FIJI02\Fiji.app\jars\jep-2.4.2.jar;C:\FIJI02\Fiji.app\jars\jffi-1.2.7-native.jar;C:\FIJI02\Fiji.app\jars\jffi-1.2.7.jar;C:\FIJI02\Fiji.app\jars\jfreechart-1.5.0.jar;C:\FIJI02\Fiji.app\jars\jfreesvg-3.2.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\jfxrt.jar;C:\FIJI02\Fiji.app\jars\jgoodies-common-1.7.0.jar;C:\FIJI02\Fiji.app\jars\jgoodies-forms-1.7.2.jar;C:\FIJI02\Fiji.app\jars\jgrapht-0.8.3.jar;C:\FIJI02\Fiji.app\jars\jgraphx-3.4.1.3.jar;C:\FIJI02\Fiji.app\jars\jhdf5-14.12.6.jar;C:\FIJI02\Fiji.app\jars\jhotdraw-7.6.0.jar;C:\FIJI02\Fiji.app\jars\jide-oss-3.6.18.jar;C:\FIJI02\Fiji.app\jars\jitk-tps-3.0.0.jar;C:\FIJI02\Fiji.app\jars\jna-4.5.1.jar;C:\FIJI02\Fiji.app\jars\jnr-constants-0.8.5.jar;C:\FIJI02\Fiji.app\jars\jnr-enxio-0.4.jar;C:\FIJI02\Fiji.app\jars\jnr-ffi-1.0.7.jar;C:\FIJI02\Fiji.app\jars\jnr-netdb-1.1.2.jar;C:\FIJI02\Fiji.app\jars\jnr-posix-3.0.1.jar;C:\FIJI02\Fiji.app\jars\jnr-unixsocket-0.3.jar;C:\FIJI02\Fiji.app\jars\jnr-x86asm-1.0.2.jar;C:\FIJI02\Fiji.app\jars\joal-2.3.2.jar;C:\FIJI02\Fiji.app\jars\win64\joal-2.3.2-natives-windows-amd64.jar;C:\FIJI02\Fiji.app\jars\joal-main-2.3.2.jar;C:\FIJI02\Fiji.app\jars\jocl-2.3.2.jar;C:\FIJI02\Fiji.app\jars\win64\jocl-2.3.2-natives-windows-amd64.jar;C:\FIJI02\Fiji.app\jars\jocl-main-2.3.2.jar;C:\FIJI02\Fiji.app\jars\joda-time-2.10.jar;C:\FIJI02\Fiji.app\jars\jogl-all-2.3.2.jar;C:\FIJI02\Fiji.app\jars\win64\jogl-all-2.3.2-natives-windows-amd64.jar;C:\FIJI02\Fiji.app\jars\jogl-all-main-2.3.2.jar;C:\FIJI02\Fiji.app\jars\joml-1.9.9.jar;C:\FIJI02\Fiji.app\jars\joni-2.1.1.jar;C:\FIJI02\Fiji.app\jars\jpedalSTD-2.80b11.jar;C:\FIJI02\Fiji.app\jars\jruby-core-1.7.12.jar;C:\FIJI02\Fiji.app\jars\jruby-stdlib-1.7.12.jar;C:\FIJI02\Fiji.app\jars\jsch-0.1.54.jar;C:\FIJI02\Fiji.app\jars\json-20180813.jar;C:\FIJI02\Fiji.app\jars\jsoup-1.7.2.jar;C:\FIJI02\Fiji.app\jars\jsr166y-1.7.0.jar;C:\FIJI02\Fiji.app\jars\jtransforms-2.4.jar;C:\FIJI02\Fiji.app\jars\jung-api-2.0.1.jar;C:\FIJI02\Fiji.app\jars\jung-graph-impl-2.0.1.jar;C:\FIJI02\Fiji.app\jars\bio-formats\jxrlib-all-0.2.1.jar;C:\FIJI02\Fiji.app\jars\jython-shaded-2.7.1.jar;C:\FIJI02\Fiji.app\jars\jzlib-1.1.3.jar;C:\FIJI02\Fiji.app\jars\kryo-2.24.0.jar;C:\FIJI02\Fiji.app\jars\languagesupport-2.6.0.jar;C:\FIJI02\Fiji.app\jars\lapack-0.8.jar;C:\FIJI02\Fiji.app\jars\legacy-imglib1-1.1.9.jar;C:\FIJI02\Fiji.app\plugins\level_sets-1.0.2.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\localedata.jar;C:\FIJI02\Fiji.app\jars\log4j-1.2.17.jar;C:\FIJI02\Fiji.app\jars\logback-classic-1.2.3.jar;C:\FIJI02\Fiji.app\jars\logback-core-1.2.3.jar;C:\FIJI02\Fiji.app\jars\mapdb-1.0.3.jar;C:\FIJI02\Fiji.app\jars\markdownj-0.3.0-1.0.2b4.jar;C:\FIJI02\Fiji.app\jars\maven-scm-api-1.4.jar;C:\FIJI02\Fiji.app\jars\maven-scm-provider-svn-commons-1.4.jar;C:\FIJI02\Fiji.app\jars\maven-scm-provider-svnexe-1.4.jar;C:\FIJI02\Fiji.app\plugins\mcib3d-suite\mcib3d-core.jar;C:\FIJI02\Fiji.app\plugins\mcib3d-suite\mcib3d_plugins.jar;C:\FIJI02\Fiji.app\jars\metadata-extractor-2.6.2.jar;C:\FIJI02\Fiji.app\jars\bio-formats\metakit-5.3.2.jar;C:\FIJI02\Fiji.app\jars\methods-0.8.1906.jar;C:\FIJI02\Fiji.app\jars\miglayout-3.7.4-swing.jar;C:\FIJI02\Fiji.app\jars\mines-jtk-20151125.jar;C:\FIJI02\Fiji.app\jars\minimaven-2.2.1.jar;C:\FIJI02\Fiji.app\jars\minlog-1.2.jar;C:\FIJI02\Fiji.app\plugins\Morphology\morphology_collection.jar;C:\FIJI02\Fiji.app\jars\mpicbg-1.2.0.jar;C:\FIJI02\Fiji.app\plugins\mpicbg_-1.2.0.jar;C:\FIJI02\Fiji.app\jars\mtj-1.0.4.jar;C:\FIJI02\Fiji.app\jars\multiverse-core-0.7.0.jar;C:\FIJI02\Fiji.app\jars\nailgun-server-0.9.1.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\nashorn.jar;C:\FIJI02\Fiji.app\jars\native-lib-loader-2.3.1.jar;C:\FIJI02\Fiji.app\jars\netcdf-4.3.22.jar;C:\FIJI02\Fiji.app\jars\netlib-java-0.9.3-renjin-patched-2.jar;C:\FIJI02\Fiji.app\jars\object-inspector-0.1.jar;C:\FIJI02\Fiji.app\jars\objenesis-2.1.jar;C:\FIJI02\Fiji.app\jars\ojalgo-45.1.1.jar;C:\FIJI02\Fiji.app\jars\okhttp-3.11.0.jar;C:\FIJI02\Fiji.app\jars\okio-1.14.0.jar;C:\FIJI02\Fiji.app\jars\bio-formats\ome-codecs-0.2.2.jar;C:\FIJI02\Fiji.app\jars\bio-formats\ome-common-5.3.6.jar;C:\FIJI02\Fiji.app\jars\bio-formats\ome-jai-0.1.0.jar;C:\FIJI02\Fiji.app\jars\bio-formats\ome-mdbtools-5.3.2.jar;C:\FIJI02\Fiji.app\jars\bio-formats\ome-poi-5.3.3.jar;C:\FIJI02\Fiji.app\jars\bio-formats\ome-xml-5.6.3.jar;C:\FIJI02\Fiji.app\jars\op-finder-0.1.3.jar;C:\FIJI02\Fiji.app\jars\opencsv-3.9.jar;C:\FIJI02\Fiji.app\jars\options-1.1.jar;C:\FIJI02\Fiji.app\jars\pal-optimization-2.0.1.jar;C:\FIJI02\Fiji.app\plugins\panorama_-3.0.2.jar;C:\FIJI02\Fiji.app\jars\parsington-1.0.2.jar;C:\FIJI02\Fiji.app\jars\perf4j-0.9.13.jar;C:\FIJI02\Fiji.app\jars\plexus-utils-1.5.6.jar;C:\FIJI02\Fiji.app\jars\postgresql-9.1-901-1.jdbc4.jar;C:\FIJI02\Fiji.app\jars\prettytime-4.0.1.Final.jar;C:\FIJI02\Fiji.app\plugins\mcib3d-suite\quickhull3d-1.0.0.jar;C:\FIJI02\Fiji.app\jars\regexp-1.3.jar;C:\FIJI02\Fiji.app\plugins\register_virtual_stack_slices-3.0.5.jar;C:\FIJI02\Fiji.app\plugins\registration_3d-2.0.1.jar;C:\FIJI02\Fiji.app\jars\renjin-appl-0.8.1906.jar;C:\FIJI02\Fiji.app\jars\renjin-core-0.8.1906.jar;C:\FIJI02\Fiji.app\jars\renjin-gnur-runtime-0.8.1906.jar;C:\FIJI02\Fiji.app\jars\renjin-script-engine-0.8.1906.jar;C:\FIJI02\Fiji.app\jars\rhino-1.7.6.jar;C:\FIJI02\Fiji.app\jars\rsyntaxtextarea-2.6.1.jar;C:\FIJI02\Fiji.app\jars\scala-compiler-2.12.1.jar;C:\FIJI02\Fiji.app\jars\scala-library-2.12.1.jar;C:\FIJI02\Fiji.app\jars\scala-reflect-2.12.1.jar;C:\FIJI02\Fiji.app\jars\scala-xml_2.12-1.0.6.jar;C:\FIJI02\Fiji.app\jars\scifio-0.37.0.jar;C:\FIJI02\Fiji.app\jars\scifio-bf-compat-3.0.0.jar;C:\FIJI02\Fiji.app\jars\scifio-cli-0.5.0.jar;C:\FIJI02\Fiji.app\jars\scifio-hdf5-0.1.3.jar;C:\FIJI02\Fiji.app\jars\scifio-jai-imageio-1.1.1.jar;C:\FIJI02\Fiji.app\jars\scifio-lifesci-0.8.0.jar;C:\FIJI02\Fiji.app\jars\scifio-ome-xml-0.15.0.jar;C:\FIJI02\Fiji.app\jars\scijava-common-2.75.0.jar;C:\FIJI02\Fiji.app\jars\scijava-config-2.0.2.jar;C:\FIJI02\Fiji.app\jars\scijava-plugins-commands-0.2.3.jar;C:\FIJI02\Fiji.app\jars\scijava-plugins-platforms-0.3.1.jar;C:\FIJI02\Fiji.app\jars\scijava-plugins-text-markdown-0.1.3.jar;C:\FIJI02\Fiji.app\jars\scijava-plugins-text-plain-0.1.3.jar;C:\FIJI02\Fiji.app\jars\scijava-search-0.5.0.jar;C:\FIJI02\Fiji.app\jars\scijava-ui-awt-0.1.6.jar;C:\FIJI02\Fiji.app\jars\scijava-ui-swing-0.11.0.jar;C:\FIJI02\Fiji.app\jars\script-editor-0.3.0.jar;C:\FIJI02\Fiji.app\jars\scripting-beanshell-0.3.3.jar;C:\FIJI02\Fiji.app\jars\scripting-clojure-0.1.6.jar;C:\FIJI02\Fiji.app\jars\scripting-groovy-0.2.7.jar;C:\FIJI02\Fiji.app\jars\scripting-java-0.4.1.jar;C:\FIJI02\Fiji.app\jars\scripting-javascript-0.4.4.jar;C:\FIJI02\Fiji.app\jars\scripting-jruby-0.2.5.jar;C:\FIJI02\Fiji.app\jars\scripting-jython-0.4.2.jar;C:\FIJI02\Fiji.app\jars\scripting-renjin-0.2.2.jar;C:\FIJI02\Fiji.app\jars\scripting-scala-0.2.1.jar;C:\FIJI02\Fiji.app\jars\slf4j-api-1.7.25.jar;C:\FIJI02\Fiji.app\jars\snakeyaml-1.13.jar;C:\FIJI02\Fiji.app\jars\bio-formats\specification-5.6.3.jar;C:\FIJI02\Fiji.app\jars\spim_data-2.2.2.jar;C:\FIJI02\Fiji.app\jars\stats-0.8.1906.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\sunec.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\sunjce_provider.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\sunmscapi.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\sunpkcs11.jar;C:\FIJI02\Fiji.app\jars\swing-checkbox-tree-1.0.2.jar;C:\FIJI02\Fiji.app\jars\swing-worker-1.1.jar;C:\FIJI02\Fiji.app\jars\swingx-1.6.1.jar;C:\FIJI02\Fiji.app\jars\trakem2-transform-1.0.1.jar;C:\FIJI02\Fiji.app\plugins\trakem2_tps-1.1.4.jar;C:\FIJI02\Fiji.app\jars\trove4j-3.0.3.jar;C:\FIJI02\Fiji.app\jars\bio-formats\turbojpeg-5.9.3-20180905.101738-2.jar;C:\FIJI02\Fiji.app\jars\udunits-4.3.18.jar;C:\FIJI02\Fiji.app\jars\ui-behaviour-1.7.3.jar;C:\FIJI02\Fiji.app\jars\utils-0.8.1906.jar;C:\FIJI02\Fiji.app\jars\vecmath-1.6.0-scijava-2.jar;C:\FIJI02\Fiji.app\jars\weave_jy2java-2.1.0.jar;C:\FIJI02\Fiji.app\jars\weka-dev-3.9.2.jar;C:\FIJI02\Fiji.app\jars\xerbla-0.8.jar;C:\FIJI02\Fiji.app\jars\xercesImpl-2.8.1.jar;C:\FIJI02\Fiji.app\jars\xml-apis-ext-1.3.04.jar;C:\FIJI02\Fiji.app\jars\xmlgraphics-commons-2.3.jar;C:\FIJI02\Fiji.app\jars\xmpcore-5.1.2.jar;C:\FIJI02\Fiji.app\jars\xz-1.0.jar;C:\FIJI02\Fiji.app\jars\yecht-1.0.jar;C:\FIJI02\Fiji.app\plugins\z_spacing-1.0.3.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\zipfs.jar, -d, C:\Users\Jerad415\AppData\Local\Temp\java2688674633997011237\target\classes, C:\Users\Jerad415\AppData\Local\Temp\java2688674633997011237\src\main\java\Multi_OtsuThreshold.java]
> using the class path: 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JI02\Fiji.app\jars\imagej-plugins-commands-0.8.0.jar;C:\FIJI02\Fiji.app\jars\imagej-plugins-tools-0.3.1.jar;C:\FIJI02\Fiji.app\jars\imagej-plugins-uploader-ssh-0.3.2.jar;C:\FIJI02\Fiji.app\jars\imagej-plugins-uploader-webdav-0.2.2.jar;C:\FIJI02\Fiji.app\jars\imagej-scripting-0.8.2.jar;C:\FIJI02\Fiji.app\jars\imagej-ui-awt-0.3.1.jar;C:\FIJI02\Fiji.app\jars\imagej-ui-swing-0.21.4.jar;C:\FIJI02\Fiji.app\jars\imagej-updater-0.9.2.jar;C:\FIJI02\Fiji.app\jars\imagescience.jar;C:\FIJI02\Fiji.app\jars\imglib2-5.3.0.jar;C:\FIJI02\Fiji.app\jars\imglib2-algorithm-0.9.0.jar;C:\FIJI02\Fiji.app\jars\imglib2-algorithm-fft-0.2.0.jar;C:\FIJI02\Fiji.app\jars\imglib2-algorithm-gpl-0.2.3.jar;C:\FIJI02\Fiji.app\jars\imglib2-cache-1.0.0-beta-9.jar;C:\FIJI02\Fiji.app\jars\imglib2-ij-2.0.0-beta-42.jar;C:\FIJI02\Fiji.app\jars\imglib2-realtransform-2.0.0.jar;C:\FIJI02\Fiji.app\jars\imglib2-roi-0.5.2.jar;C:\FIJI02\Fiji.app\jars\imglib2-ui-2.0.0.jar;C:\FIJI02\Fiji.app\jars\invokebinder-1.2.jar;C:\FIJI02\Fiji.app\jars\itextpdf-5.5.13.jar;C:\FIJI02\Fiji.app\jars\ivy-2.4.0.jar;C:\FIJI02\Fiji.app\jars\j3dcore-1.6.0-scijava-2.jar;C:\FIJI02\Fiji.app\jars\j3dutils-1.6.0-scijava-2.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\jaccess.jar;C:\FIJI02\Fiji.app\jars\jai-codec-1.1.3.jar;C:\FIJI02\Fiji.app\jars\jai-core-1.1.3.jar;C:\FIJI02\Fiji.app\jars\bio-formats\jai_imageio-5.1.10.jar;C:\FIJI02\Fiji.app\jars\jama-1.0.3.jar;C:\FIJI02\Fiji.app\jars\javacpp-0.11.jar;C:\FIJI02\Fiji.app\jars\javassist-3.22.0-GA.jar;C:\FIJI02\Fiji.app\jars\jcodings-1.0.10.jar;C:\FIJI02\Fiji.app\jars\jcommander-1.48.jar;C:\FIJI02\Fiji.app\jars\jcommon-1.0.24.jar;C:\FIJI02\Fiji.app\jars\jdatepicker-1.3.2.jar;C:\FIJI02\Fiji.app\jars\jdom2-2.0.6.jar;C:\FIJI02\Fiji.app\jars\jep-2.4.2.jar;C:\FIJI02\Fiji.app\jars\jffi-1.2.7-native.jar;C:\FIJI02\Fiji.app\jars\jffi-1.2.7.jar;C:\FIJI02\Fiji.app\jars\jfreechart-1.5.0.jar;C:\FIJI02\Fiji.app\jars\jfreesvg-3.2.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\jfxrt.jar;C:\FIJI02\Fiji.app\jars\jgoodies-common-1.7.0.jar;C:\FIJI02\Fiji.app\jars\jgoodies-forms-1.7.2.jar;C:\FIJI02\Fiji.app\jars\jgrapht-0.8.3.jar;C:\FIJI02\Fiji.app\jars\jgraphx-3.4.1.3.jar;C:\FIJI02\Fiji.app\jars\jhdf5-14.12.6.jar;C:\FIJI02\Fiji.app\jars\jhotdraw-7.6.0.jar;C:\FIJI02\Fiji.app\jars\jide-oss-3.6.18.jar;C:\FIJI02\Fiji.app\jars\jitk-tps-3.0.0.jar;C:\FIJI02\Fiji.app\jars\jna-4.5.1.jar;C:\FIJI02\Fiji.app\jars\jnr-constants-0.8.5.jar;C:\FIJI02\Fiji.app\jars\jnr-enxio-0.4.jar;C:\FIJI02\Fiji.app\jars\jnr-ffi-1.0.7.jar;C:\FIJI02\Fiji.app\jars\jnr-netdb-1.1.2.jar;C:\FIJI02\Fiji.app\jars\jnr-posix-3.0.1.jar;C:\FIJI02\Fiji.app\jars\jnr-unixsocket-0.3.jar;C:\FIJI02\Fiji.app\jars\jnr-x86asm-1.0.2.jar;C:\FIJI02\Fiji.app\jars\joal-2.3.2.jar;C:\FIJI02\Fiji.app\jars\win64\joal-2.3.2-natives-windows-amd64.jar;C:\FIJI02\Fiji.app\jars\joal-main-2.3.2.jar;C:\FIJI02\Fiji.app\jars\jocl-2.3.2.jar;C:\FIJI02\Fiji.app\jars\win64\jocl-2.3.2-natives-windows-amd64.jar;C:\FIJI02\Fiji.app\jars\jocl-main-2.3.2.jar;C:\FIJI02\Fiji.app\jars\joda-time-2.10.jar;C:\FIJI02\Fiji.app\jars\jogl-all-2.3.2.jar;C:\FIJI02\Fiji.app\jars\win64\jogl-all-2.3.2-natives-windows-amd64.jar;C:\FIJI02\Fiji.app\jars\jogl-all-main-2.3.2.jar;C:\FIJI02\Fiji.app\jars\joml-1.9.9.jar;C:\FIJI02\Fiji.app\jars\joni-2.1.1.jar;C:\FIJI02\Fiji.app\jars\jpedalSTD-2.80b11.jar;C:\FIJI02\Fiji.app\jars\jruby-core-1.7.12.jar;C:\FIJI02\Fiji.app\jars\jruby-stdlib-1.7.12.jar;C:\FIJI02\Fiji.app\jars\jsch-0.1.54.jar;C:\FIJI02\Fiji.app\jars\json-20180813.jar;C:\FIJI02\Fiji.app\jars\jsoup-1.7.2.jar;C:\FIJI02\Fiji.app\jars\jsr166y-1.7.0.jar;C:\FIJI02\Fiji.app\jars\jtransforms-2.4.jar;C:\FIJI02\Fiji.app\jars\jung-api-2.0.1.jar;C:\FIJI02\Fiji.app\jars\jung-graph-impl-2.0.1.jar;C:\FIJI02\Fiji.app\jars\bio-formats\jxrlib-all-0.2.1.jar;C:\FIJI02\Fiji.app\jars\jython-shaded-2.7.1.jar;C:\FIJI02\Fiji.app\jars\jzlib-1.1.3.jar;C:\FIJI02\Fiji.app\jars\kryo-2.24.0.jar;C:\FIJI02\Fiji.app\jars\languagesupport-2.6.0.jar;C:\FIJI02\Fiji.app\jars\lapack-0.8.jar;C:\FIJI02\Fiji.app\jars\legacy-imglib1-1.1.9.jar;C:\FIJI02\Fiji.app\plugins\level_sets-1.0.2.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\localedata.jar;C:\FIJI02\Fiji.app\jars\log4j-1.2.17.jar;C:\FIJI02\Fiji.app\jars\logback-classic-1.2.3.jar;C:\FIJI02\Fiji.app\jars\logback-core-1.2.3.jar;C:\FIJI02\Fiji.app\jars\mapdb-1.0.3.jar;C:\FIJI02\Fiji.app\jars\markdownj-0.3.0-1.0.2b4.jar;C:\FIJI02\Fiji.app\jars\maven-scm-api-1.4.jar;C:\FIJI02\Fiji.app\jars\maven-scm-provider-svn-commons-1.4.jar;C:\FIJI02\Fiji.app\jars\maven-scm-provider-svnexe-1.4.jar;C:\FIJI02\Fiji.app\plugins\mcib3d-suite\mcib3d-core.jar;C:\FIJI02\Fiji.app\plugins\mcib3d-suite\mcib3d_plugins.jar;C:\FIJI02\Fiji.app\jars\metadata-extractor-2.6.2.jar;C:\FIJI02\Fiji.app\jars\bio-formats\metakit-5.3.2.jar;C:\FIJI02\Fiji.app\jars\methods-0.8.1906.jar;C:\FIJI02\Fiji.app\jars\miglayout-3.7.4-swing.jar;C:\FIJI02\Fiji.app\jars\mines-jtk-20151125.jar;C:\FIJI02\Fiji.app\jars\minimaven-2.2.1.jar;C:\FIJI02\Fiji.app\jars\minlog-1.2.jar;C:\FIJI02\Fiji.app\plugins\Morphology\morphology_collection.jar;C:\FIJI02\Fiji.app\jars\mpicbg-1.2.0.jar;C:\FIJI02\Fiji.app\plugins\mpicbg_-1.2.0.jar;C:\FIJI02\Fiji.app\jars\mtj-1.0.4.jar;C:\FIJI02\Fiji.app\jars\multiverse-core-0.7.0.jar;C:\FIJI02\Fiji.app\jars\nailgun-server-0.9.1.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\nashorn.jar;C:\FIJI02\Fiji.app\jars\native-lib-loader-2.3.1.jar;C:\FIJI02\Fiji.app\jars\netcdf-4.3.22.jar;C:\FIJI02\Fiji.app\jars\netlib-java-0.9.3-renjin-patched-2.jar;C:\FIJI02\Fiji.app\jars\object-inspector-0.1.jar;C:\FIJI02\Fiji.app\jars\objenesis-2.1.jar;C:\FIJI02\Fiji.app\jars\ojalgo-45.1.1.jar;C:\FIJI02\Fiji.app\jars\okhttp-3.11.0.jar;C:\FIJI02\Fiji.app\jars\okio-1.14.0.jar;C:\FIJI02\Fiji.app\jars\bio-formats\ome-codecs-0.2.2.jar;C:\FIJI02\Fiji.app\jars\bio-formats\ome-common-5.3.6.jar;C:\FIJI02\Fiji.app\jars\bio-formats\ome-jai-0.1.0.jar;C:\FIJI02\Fiji.app\jars\bio-formats\ome-mdbtools-5.3.2.jar;C:\FIJI02\Fiji.app\jars\bio-formats\ome-poi-5.3.3.jar;C:\FIJI02\Fiji.app\jars\bio-formats\ome-xml-5.6.3.jar;C:\FIJI02\Fiji.app\jars\op-finder-0.1.3.jar;C:\FIJI02\Fiji.app\jars\opencsv-3.9.jar;C:\FIJI02\Fiji.app\jars\options-1.1.jar;C:\FIJI02\Fiji.app\jars\pal-optimization-2.0.1.jar;C:\FIJI02\Fiji.app\plugins\panorama_-3.0.2.jar;C:\FIJI02\Fiji.app\jars\parsington-1.0.2.jar;C:\FIJI02\Fiji.app\jars\perf4j-0.9.13.jar;C:\FIJI02\Fiji.app\jars\plexus-utils-1.5.6.jar;C:\FIJI02\Fiji.app\jars\postgresql-9.1-901-1.jdbc4.jar;C:\FIJI02\Fiji.app\jars\prettytime-4.0.1.Final.jar;C:\FIJI02\Fiji.app\plugins\mcib3d-suite\quickhull3d-1.0.0.jar;C:\FIJI02\Fiji.app\jars\regexp-1.3.jar;C:\FIJI02\Fiji.app\plugins\register_virtual_stack_slices-3.0.5.jar;C:\FIJI02\Fiji.app\plugins\registration_3d-2.0.1.jar;C:\FIJI02\Fiji.app\jars\renjin-appl-0.8.1906.jar;C:\FIJI02\Fiji.app\jars\renjin-core-0.8.1906.jar;C:\FIJI02\Fiji.app\jars\renjin-gnur-runtime-0.8.1906.jar;C:\FIJI02\Fiji.app\jars\renjin-script-engine-0.8.1906.jar;C:\FIJI02\Fiji.app\jars\rhino-1.7.6.jar;C:\FIJI02\Fiji.app\jars\rsyntaxtextarea-2.6.1.jar;C:\FIJI02\Fiji.app\jars\scala-compiler-2.12.1.jar;C:\FIJI02\Fiji.app\jars\scala-library-2.12.1.jar;C:\FIJI02\Fiji.app\jars\scala-reflect-2.12.1.jar;C:\FIJI02\Fiji.app\jars\scala-xml_2.12-1.0.6.jar;C:\FIJI02\Fiji.app\jars\scifio-0.37.0.jar;C:\FIJI02\Fiji.app\jars\scifio-bf-compat-3.0.0.jar;C:\FIJI02\Fiji.app\jars\scifio-cli-0.5.0.jar;C:\FIJI02\Fiji.app\jars\scifio-hdf5-0.1.3.jar;C:\FIJI02\Fiji.app\jars\scifio-jai-imageio-1.1.1.jar;C:\FIJI02\Fiji.app\jars\scifio-lifesci-0.8.0.jar;C:\FIJI02\Fiji.app\jars\scifio-ome-xml-0.15.0.jar;C:\FIJI02\Fiji.app\jars\scijava-common-2.75.0.jar;C:\FIJI02\Fiji.app\jars\scijava-config-2.0.2.jar;C:\FIJI02\Fiji.app\jars\scijava-plugins-commands-0.2.3.jar;C:\FIJI02\Fiji.app\jars\scijava-plugins-platforms-0.3.1.jar;C:\FIJI02\Fiji.app\jars\scijava-plugins-text-markdown-0.1.3.jar;C:\FIJI02\Fiji.app\jars\scijava-plugins-text-plain-0.1.3.jar;C:\FIJI02\Fiji.app\jars\scijava-search-0.5.0.jar;C:\FIJI02\Fiji.app\jars\scijava-ui-awt-0.1.6.jar;C:\FIJI02\Fiji.app\jars\scijava-ui-swing-0.11.0.jar;C:\FIJI02\Fiji.app\jars\script-editor-0.3.0.jar;C:\FIJI02\Fiji.app\jars\scripting-beanshell-0.3.3.jar;C:\FIJI02\Fiji.app\jars\scripting-clojure-0.1.6.jar;C:\FIJI02\Fiji.app\jars\scripting-groovy-0.2.7.jar;C:\FIJI02\Fiji.app\jars\scripting-java-0.4.1.jar;C:\FIJI02\Fiji.app\jars\scripting-javascript-0.4.4.jar;C:\FIJI02\Fiji.app\jars\scripting-jruby-0.2.5.jar;C:\FIJI02\Fiji.app\jars\scripting-jython-0.4.2.jar;C:\FIJI02\Fiji.app\jars\scripting-renjin-0.2.2.jar;C:\FIJI02\Fiji.app\jars\scripting-scala-0.2.1.jar;C:\FIJI02\Fiji.app\jars\slf4j-api-1.7.25.jar;C:\FIJI02\Fiji.app\jars\snakeyaml-1.13.jar;C:\FIJI02\Fiji.app\jars\bio-formats\specification-5.6.3.jar;C:\FIJI02\Fiji.app\jars\spim_data-2.2.2.jar;C:\FIJI02\Fiji.app\jars\stats-0.8.1906.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\sunec.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\sunjce_provider.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\sunmscapi.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\sunpkcs11.jar;C:\FIJI02\Fiji.app\jars\swing-checkbox-tree-1.0.2.jar;C:\FIJI02\Fiji.app\jars\swing-worker-1.1.jar;C:\FIJI02\Fiji.app\jars\swingx-1.6.1.jar;C:\FIJI02\Fiji.app\jars\trakem2-transform-1.0.1.jar;C:\FIJI02\Fiji.app\plugins\trakem2_tps-1.1.4.jar;C:\FIJI02\Fiji.app\jars\trove4j-3.0.3.jar;C:\FIJI02\Fiji.app\jars\bio-formats\turbojpeg-5.9.3-20180905.101738-2.jar;C:\FIJI02\Fiji.app\jars\udunits-4.3.18.jar;C:\FIJI02\Fiji.app\jars\ui-behaviour-1.7.3.jar;C:\FIJI02\Fiji.app\jars\utils-0.8.1906.jar;C:\FIJI02\Fiji.app\jars\vecmath-1.6.0-scijava-2.jar;C:\FIJI02\Fiji.app\jars\weave_jy2java-2.1.0.jar;C:\FIJI02\Fiji.app\jars\weka-dev-3.9.2.jar;C:\FIJI02\Fiji.app\jars\xerbla-0.8.jar;C:\FIJI02\Fiji.app\jars\xercesImpl-2.8.1.jar;C:\FIJI02\Fiji.app\jars\xml-apis-ext-1.3.04.jar;C:\FIJI02\Fiji.app\jars\xmlgraphics-commons-2.3.jar;C:\FIJI02\Fiji.app\jars\xmpcore-5.1.2.jar;C:\FIJI02\Fiji.app\jars\xz-1.0.jar;C:\FIJI02\Fiji.app\jars\yecht-1.0.jar;C:\FIJI02\Fiji.app\plugins\z_spacing-1.0.3.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\zipfs.jar
> No javax.tools.JavaCompiler available. Checking for explicit javac.
> No javac.jar found (looked in C:\FIJI02\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:331)
> 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:160)
> at org.scijava.module.ModuleRunner.run(ModuleRunner.java:168)
> at org.scijava.module.ModuleRunner.call(ModuleRunner.java:127)
> at org.scijava.module.ModuleRunner.call(ModuleRunner.java:66)
> at org.scijava.thread.DefaultThreadService$3.call(DefaultThreadService.java:238)
> at java.util.concurrent.FutureTask.run(FutureTask.java:266)
> at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1142)
> at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:617)
> at java.lang.Thread.run(Thread.java:745)
> Could not find javac java.lang.ClassNotFoundException: com.sun.tools.javac.Main, falling back to system javac
> Executing: 'javac' '-classpath' 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IJI02\Fiji.app\jars\imagej-plugins-commands-0.8.0.jar;C:\FIJI02\Fiji.app\jars\imagej-plugins-tools-0.3.1.jar;C:\FIJI02\Fiji.app\jars\imagej-plugins-uploader-ssh-0.3.2.jar;C:\FIJI02\Fiji.app\jars\imagej-plugins-uploader-webdav-0.2.2.jar;C:\FIJI02\Fiji.app\jars\imagej-scripting-0.8.2.jar;C:\FIJI02\Fiji.app\jars\imagej-ui-awt-0.3.1.jar;C:\FIJI02\Fiji.app\jars\imagej-ui-swing-0.21.4.jar;C:\FIJI02\Fiji.app\jars\imagej-updater-0.9.2.jar;C:\FIJI02\Fiji.app\jars\imagescience.jar;C:\FIJI02\Fiji.app\jars\imglib2-5.3.0.jar;C:\FIJI02\Fiji.app\jars\imglib2-algorithm-0.9.0.jar;C:\FIJI02\Fiji.app\jars\imglib2-algorithm-fft-0.2.0.jar;C:\FIJI02\Fiji.app\jars\imglib2-algorithm-gpl-0.2.3.jar;C:\FIJI02\Fiji.app\jars\imglib2-cache-1.0.0-beta-9.jar;C:\FIJI02\Fiji.app\jars\imglib2-ij-2.0.0-beta-42.jar;C:\FIJI02\Fiji.app\jars\imglib2-realtransform-2.0.0.jar;C:\FIJI02\Fiji.app\jars\imglib2-roi-0.5.2.jar;C:\FIJI02\Fiji.app\jars\imglib2-ui-2.0.0.jar;C:\FIJI02\Fiji.app\jars\invokebinder-1.2.jar;C:\FIJI02\Fiji.app\jars\itextpdf-5.5.13.jar;C:\FIJI02\Fiji.app\jars\ivy-2.4.0.jar;C:\FIJI02\Fiji.app\jars\j3dcore-1.6.0-scijava-2.jar;C:\FIJI02\Fiji.app\jars\j3dutils-1.6.0-scijava-2.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\jaccess.jar;C:\FIJI02\Fiji.app\jars\jai-codec-1.1.3.jar;C:\FIJI02\Fiji.app\jars\jai-core-1.1.3.jar;C:\FIJI02\Fiji.app\jars\bio-formats\jai_imageio-5.1.10.jar;C:\FIJI02\Fiji.app\jars\jama-1.0.3.jar;C:\FIJI02\Fiji.app\jars\javacpp-0.11.jar;C:\FIJI02\Fiji.app\jars\javassist-3.22.0-GA.jar;C:\FIJI02\Fiji.app\jars\jcodings-1.0.10.jar;C:\FIJI02\Fiji.app\jars\jcommander-1.48.jar;C:\FIJI02\Fiji.app\jars\jcommon-1.0.24.jar;C:\FIJI02\Fiji.app\jars\jdatepicker-1.3.2.jar;C:\FIJI02\Fiji.app\jars\jdom2-2.0.6.jar;C:\FIJI02\Fiji.app\jars\jep-2.4.2.jar;C:\FIJI02\Fiji.app\jars\jffi-1.2.7-native.jar;C:\FIJI02\Fiji.app\jars\jffi-1.2.7.jar;C:\FIJI02\Fiji.app\jars\jfreechart-1.5.0.jar;C:\FIJI02\Fiji.app\jars\jfreesvg-3.2.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\jfxrt.jar;C:\FIJI02\Fiji.app\jars\jgoodies-common-1.7.0.jar;C:\FIJI02\Fiji.app\jars\jgoodies-forms-1.7.2.jar;C:\FIJI02\Fiji.app\jars\jgrapht-0.8.3.jar;C:\FIJI02\Fiji.app\jars\jgraphx-3.4.1.3.jar;C:\FIJI02\Fiji.app\jars\jhdf5-14.12.6.jar;C:\FIJI02\Fiji.app\jars\jhotdraw-7.6.0.jar;C:\FIJI02\Fiji.app\jars\jide-oss-3.6.18.jar;C:\FIJI02\Fiji.app\jars\jitk-tps-3.0.0.jar;C:\FIJI02\Fiji.app\jars\jna-4.5.1.jar;C:\FIJI02\Fiji.app\jars\jnr-constants-0.8.5.jar;C:\FIJI02\Fiji.app\jars\jnr-enxio-0.4.jar;C:\FIJI02\Fiji.app\jars\jnr-ffi-1.0.7.jar;C:\FIJI02\Fiji.app\jars\jnr-netdb-1.1.2.jar;C:\FIJI02\Fiji.app\jars\jnr-posix-3.0.1.jar;C:\FIJI02\Fiji.app\jars\jnr-unixsocket-0.3.jar;C:\FIJI02\Fiji.app\jars\jnr-x86asm-1.0.2.jar;C:\FIJI02\Fiji.app\jars\joal-2.3.2.jar;C:\FIJI02\Fiji.app\jars\win64\joal-2.3.2-natives-windows-amd64.jar;C:\FIJI02\Fiji.app\jars\joal-main-2.3.2.jar;C:\FIJI02\Fiji.app\jars\jocl-2.3.2.jar;C:\FIJI02\Fiji.app\jars\win64\jocl-2.3.2-natives-windows-amd64.jar;C:\FIJI02\Fiji.app\jars\jocl-main-2.3.2.jar;C:\FIJI02\Fiji.app\jars\joda-time-2.10.jar;C:\FIJI02\Fiji.app\jars\jogl-all-2.3.2.jar;C:\FIJI02\Fiji.app\jars\win64\jogl-all-2.3.2-natives-windows-amd64.jar;C:\FIJI02\Fiji.app\jars\jogl-all-main-2.3.2.jar;C:\FIJI02\Fiji.app\jars\joml-1.9.9.jar;C:\FIJI02\Fiji.app\jars\joni-2.1.1.jar;C:\FIJI02\Fiji.app\jars\jpedalSTD-2.80b11.jar;C:\FIJI02\Fiji.app\jars\jruby-core-1.7.12.jar;C:\FIJI02\Fiji.app\jars\jruby-stdlib-1.7.12.jar;C:\FIJI02\Fiji.app\jars\jsch-0.1.54.jar;C:\FIJI02\Fiji.app\jars\json-20180813.jar;C:\FIJI02\Fiji.app\jars\jsoup-1.7.2.jar;C:\FIJI02\Fiji.app\jars\jsr166y-1.7.0.jar;C:\FIJI02\Fiji.app\jars\jtransforms-2.4.jar;C:\FIJI02\Fiji.app\jars\jung-api-2.0.1.jar;C:\FIJI02\Fiji.app\jars\jung-graph-impl-2.0.1.jar;C:\FIJI02\Fiji.app\jars\bio-formats\jxrlib-all-0.2.1.jar;C:\FIJI02\Fiji.app\jars\jython-shaded-2.7.1.jar;C:\FIJI02\Fiji.app\jars\jzlib-1.1.3.jar;C:\FIJI02\Fiji.app\jars\kryo-2.24.0.jar;C:\FIJI02\Fiji.app\jars\languagesupport-2.6.0.jar;C:\FIJI02\Fiji.app\jars\lapack-0.8.jar;C:\FIJI02\Fiji.app\jars\legacy-imglib1-1.1.9.jar;C:\FIJI02\Fiji.app\plugins\level_sets-1.0.2.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\localedata.jar;C:\FIJI02\Fiji.app\jars\log4j-1.2.17.jar;C:\FIJI02\Fiji.app\jars\logback-classic-1.2.3.jar;C:\FIJI02\Fiji.app\jars\logback-core-1.2.3.jar;C:\FIJI02\Fiji.app\jars\mapdb-1.0.3.jar;C:\FIJI02\Fiji.app\jars\markdownj-0.3.0-1.0.2b4.jar;C:\FIJI02\Fiji.app\jars\maven-scm-api-1.4.jar;C:\FIJI02\Fiji.app\jars\maven-scm-provider-svn-commons-1.4.jar;C:\FIJI02\Fiji.app\jars\maven-scm-provider-svnexe-1.4.jar;C:\FIJI02\Fiji.app\plugins\mcib3d-suite\mcib3d-core.jar;C:\FIJI02\Fiji.app\plugins\mcib3d-suite\mcib3d_plugins.jar;C:\FIJI02\Fiji.app\jars\metadata-extractor-2.6.2.jar;C:\FIJI02\Fiji.app\jars\bio-formats\metakit-5.3.2.jar;C:\FIJI02\Fiji.app\jars\methods-0.8.1906.jar;C:\FIJI02\Fiji.app\jars\miglayout-3.7.4-swing.jar;C:\FIJI02\Fiji.app\jars\mines-jtk-20151125.jar;C:\FIJI02\Fiji.app\jars\minimaven-2.2.1.jar;C:\FIJI02\Fiji.app\jars\minlog-1.2.jar;C:\FIJI02\Fiji.app\plugins\Morphology\morphology_collection.jar;C:\FIJI02\Fiji.app\jars\mpicbg-1.2.0.jar;C:\FIJI02\Fiji.app\plugins\mpicbg_-1.2.0.jar;C:\FIJI02\Fiji.app\jars\mtj-1.0.4.jar;C:\FIJI02\Fiji.app\jars\multiverse-core-0.7.0.jar;C:\FIJI02\Fiji.app\jars\nailgun-server-0.9.1.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\nashorn.jar;C:\FIJI02\Fiji.app\jars\native-lib-loader-2.3.1.jar;C:\FIJI02\Fiji.app\jars\netcdf-4.3.22.jar;C:\FIJI02\Fiji.app\jars\netlib-java-0.9.3-renjin-patched-2.jar;C:\FIJI02\Fiji.app\jars\object-inspector-0.1.jar;C:\FIJI02\Fiji.app\jars\objenesis-2.1.jar;C:\FIJI02\Fiji.app\jars\ojalgo-45.1.1.jar;C:\FIJI02\Fiji.app\jars\okhttp-3.11.0.jar;C:\FIJI02\Fiji.app\jars\okio-1.14.0.jar;C:\FIJI02\Fiji.app\jars\bio-formats\ome-codecs-0.2.2.jar;C:\FIJI02\Fiji.app\jars\bio-formats\ome-common-5.3.6.jar;C:\FIJI02\Fiji.app\jars\bio-formats\ome-jai-0.1.0.jar;C:\FIJI02\Fiji.app\jars\bio-formats\ome-mdbtools-5.3.2.jar;C:\FIJI02\Fiji.app\jars\bio-formats\ome-poi-5.3.3.jar;C:\FIJI02\Fiji.app\jars\bio-formats\ome-xml-5.6.3.jar;C:\FIJI02\Fiji.app\jars\op-finder-0.1.3.jar;C:\FIJI02\Fiji.app\jars\opencsv-3.9.jar;C:\FIJI02\Fiji.app\jars\options-1.1.jar;C:\FIJI02\Fiji.app\jars\pal-optimization-2.0.1.jar;C:\FIJI02\Fiji.app\plugins\panorama_-3.0.2.jar;C:\FIJI02\Fiji.app\jars\parsington-1.0.2.jar;C:\FIJI02\Fiji.app\jars\perf4j-0.9.13.jar;C:\FIJI02\Fiji.app\jars\plexus-utils-1.5.6.jar;C:\FIJI02\Fiji.app\jars\postgresql-9.1-901-1.jdbc4.jar;C:\FIJI02\Fiji.app\jars\prettytime-4.0.1.Final.jar;C:\FIJI02\Fiji.app\plugins\mcib3d-suite\quickhull3d-1.0.0.jar;C:\FIJI02\Fiji.app\jars\regexp-1.3.jar;C:\FIJI02\Fiji.app\plugins\register_virtual_stack_slices-3.0.5.jar;C:\FIJI02\Fiji.app\plugins\registration_3d-2.0.1.jar;C:\FIJI02\Fiji.app\jars\renjin-appl-0.8.1906.jar;C:\FIJI02\Fiji.app\jars\renjin-core-0.8.1906.jar;C:\FIJI02\Fiji.app\jars\renjin-gnur-runtime-0.8.1906.jar;C:\FIJI02\Fiji.app\jars\renjin-script-engine-0.8.1906.jar;C:\FIJI02\Fiji.app\jars\rhino-1.7.6.jar;C:\FIJI02\Fiji.app\jars\rsyntaxtextarea-2.6.1.jar;C:\FIJI02\Fiji.app\jars\scala-compiler-2.12.1.jar;C:\FIJI02\Fiji.app\jars\scala-library-2.12.1.jar;C:\FIJI02\Fiji.app\jars\scala-reflect-2.12.1.jar;C:\FIJI02\Fiji.app\jars\scala-xml_2.12-1.0.6.jar;C:\FIJI02\Fiji.app\jars\scifio-0.37.0.jar;C:\FIJI02\Fiji.app\jars\scifio-bf-compat-3.0.0.jar;C:\FIJI02\Fiji.app\jars\scifio-cli-0.5.0.jar;C:\FIJI02\Fiji.app\jars\scifio-hdf5-0.1.3.jar;C:\FIJI02\Fiji.app\jars\scifio-jai-imageio-1.1.1.jar;C:\FIJI02\Fiji.app\jars\scifio-lifesci-0.8.0.jar;C:\FIJI02\Fiji.app\jars\scifio-ome-xml-0.15.0.jar;C:\FIJI02\Fiji.app\jars\scijava-common-2.75.0.jar;C:\FIJI02\Fiji.app\jars\scijava-config-2.0.2.jar;C:\FIJI02\Fiji.app\jars\scijava-plugins-commands-0.2.3.jar;C:\FIJI02\Fiji.app\jars\scijava-plugins-platforms-0.3.1.jar;C:\FIJI02\Fiji.app\jars\scijava-plugins-text-markdown-0.1.3.jar;C:\FIJI02\Fiji.app\jars\scijava-plugins-text-plain-0.1.3.jar;C:\FIJI02\Fiji.app\jars\scijava-search-0.5.0.jar;C:\FIJI02\Fiji.app\jars\scijava-ui-awt-0.1.6.jar;C:\FIJI02\Fiji.app\jars\scijava-ui-swing-0.11.0.jar;C:\FIJI02\Fiji.app\jars\script-editor-0.3.0.jar;C:\FIJI02\Fiji.app\jars\scripting-beanshell-0.3.3.jar;C:\FIJI02\Fiji.app\jars\scripting-clojure-0.1.6.jar;C:\FIJI02\Fiji.app\jars\scripting-groovy-0.2.7.jar;C:\FIJI02\Fiji.app\jars\scripting-java-0.4.1.jar;C:\FIJI02\Fiji.app\jars\scripting-javascript-0.4.4.jar;C:\FIJI02\Fiji.app\jars\scripting-jruby-0.2.5.jar;C:\FIJI02\Fiji.app\jars\scripting-jython-0.4.2.jar;C:\FIJI02\Fiji.app\jars\scripting-renjin-0.2.2.jar;C:\FIJI02\Fiji.app\jars\scripting-scala-0.2.1.jar;C:\FIJI02\Fiji.app\jars\slf4j-api-1.7.25.jar;C:\FIJI02\Fiji.app\jars\snakeyaml-1.13.jar;C:\FIJI02\Fiji.app\jars\bio-formats\specification-5.6.3.jar;C:\FIJI02\Fiji.app\jars\spim_data-2.2.2.jar;C:\FIJI02\Fiji.app\jars\stats-0.8.1906.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\sunec.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\sunjce_provider.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\sunmscapi.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\sunpkcs11.jar;C:\FIJI02\Fiji.app\jars\swing-checkbox-tree-1.0.2.jar;C:\FIJI02\Fiji.app\jars\swing-worker-1.1.jar;C:\FIJI02\Fiji.app\jars\swingx-1.6.1.jar;C:\FIJI02\Fiji.app\jars\trakem2-transform-1.0.1.jar;C:\FIJI02\Fiji.app\plugins\trakem2_tps-1.1.4.jar;C:\FIJI02\Fiji.app\jars\trove4j-3.0.3.jar;C:\FIJI02\Fiji.app\jars\bio-formats\turbojpeg-5.9.3-20180905.101738-2.jar;C:\FIJI02\Fiji.app\jars\udunits-4.3.18.jar;C:\FIJI02\Fiji.app\jars\ui-behaviour-1.7.3.jar;C:\FIJI02\Fiji.app\jars\utils-0.8.1906.jar;C:\FIJI02\Fiji.app\jars\vecmath-1.6.0-scijava-2.jar;C:\FIJI02\Fiji.app\jars\weave_jy2java-2.1.0.jar;C:\FIJI02\Fiji.app\jars\weka-dev-3.9.2.jar;C:\FIJI02\Fiji.app\jars\xerbla-0.8.jar;C:\FIJI02\Fiji.app\jars\xercesImpl-2.8.1.jar;C:\FIJI02\Fiji.app\jars\xml-apis-ext-1.3.04.jar;C:\FIJI02\Fiji.app\jars\xmlgraphics-commons-2.3.jar;C:\FIJI02\Fiji.app\jars\xmpcore-5.1.2.jar;C:\FIJI02\Fiji.app\jars\xz-1.0.jar;C:\FIJI02\Fiji.app\jars\yecht-1.0.jar;C:\FIJI02\Fiji.app\plugins\z_spacing-1.0.3.jar;C:\FIJI02\Fiji.app\java\win64\jdk1.8.0_66\jre\lib\ext\zipfs.jar' '-d' 'C:\Users\Jerad415\AppData\Local\Temp\java2688674633997011237\target\classes' 'C:\Users\Jerad415\AppData\Local\Temp\java2688674633997011237\src\main\java\Multi_OtsuThreshold.java'
> [ERROR] null
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