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#15 446.8 [[1;34mINFO[m] Building jar: /bio-formats-build/bioformats/components/bundles/bioformats_package/target/bioformats_package-8.4.0-SNAPSHOT.jar
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#15 454.4 [[1;34mINFO[m] Installing /bio-formats-build/bioformats/components/bundles/bioformats_package/pom.xml to /home/build/.m2/repository/ome/bioformats_package/8.4.0-SNAPSHOT/bioformats_package-8.4.0-SNAPSHOT.pom
#15 454.4 [[1;34mINFO[m] Installing /bio-formats-build/bioformats/components/bundles/bioformats_package/target/bioformats_package-8.4.0-SNAPSHOT.jar to /home/build/.m2/repository/ome/bioformats_package/8.4.0-SNAPSHOT/bioformats_package-8.4.0-SNAPSHOT.jar
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#15 454.5 [[1;34mINFO[m] [1m---------------------------< [0;36mome:test-suite[0;1m >---------------------------[m
#15 454.5 [[1;34mINFO[m] [1mBuilding Bio-Formats testing framework 8.4.0-SNAPSHOT [20/24][m
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#15 456.7 [[1;34mINFO[m] Executing: /bin/sh -c cd '/bio-formats-build/bioformats/components/test-suite' && 'git' 'rev-parse' '--verify' 'HEAD'
#15 456.7 [[1;34mINFO[m] Working directory: /bio-formats-build/bioformats/components/test-suite
#15 456.7 [[1;34mINFO[m] Storing buildNumber: 8352c5eb1e37a001386563602517273378fde7fe at timestamp: 1767226549327
#15 456.7 [[1;34mINFO[m] Storing buildScmBranch: merge_ci
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#15 456.7 [[1;34mINFO[m] Compiling 23 source files with javac [debug release 8] to target/classes
#15 457.0 [[1;33mWARNING[m] source value 8 is obsolete and will be removed in a future release
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#15 457.0 [[1;34mINFO[m] /bio-formats-build/bioformats/components/test-suite/src/loci/tests/testng/Configuration.java: Some input files use or override a deprecated API.
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#15 459.1 Executing ReadPhysicalSize
#15 459.4 Physical calibration - Image: 0
#15 459.4 X = 1.0 nm = 0.001 µm
#15 459.4 Y = 0.1 µm = 0.1 µm
#15 459.4 Success
#15 459.4 Executing FileConvert
#15 459.6 Success
#15 459.6 Executing FileExport
#15 459.6 Success
#15 459.6 Executing FileExportSPW
#15 460.1 Success
#15 460.1 Executing SimpleTiledWriter
#15 460.2 Success
#15 460.2 Executing TiledReaderWriter
#15 460.2 Success
#15 460.2 Executing TiledReaderWriter
#15 460.3 Success
#15 460.3 Executing OverlappedTiledWriter
#15 460.5 Success
#15 460.5 Executing OverlappedTiledWriter
#15 460.6 Success
#15 460.6 Executing ReadWriteInMemory
#15 460.6 Reading file into memory from disk...
#15 460.6 0 bytes read.
#15 460.6
#15 460.6 Reading image data from memory...
#15 460.6 Series count: 1
#15 460.6 First series:
#15 460.6 Image count = 1
#15 460.6 SizeX = 512
#15 460.6 SizeY = 512
#15 460.6 SizeZ = 1
#15 460.6 SizeC = 1
#15 460.6 SizeT = 1
#15 460.6
#15 460.6 Writing planes to destination in memory: .
#15 460.6
#15 460.6 Flushing image data to disk...
#15 460.6 Success
#15 460.6 Executing OrthogonalReader
#15 460.6 2026-01-01 00:15:53,304 [ExampleSuite.main()] INFO loci.formats.ImageReader - FakeReader initializing /bio-formats-build/bio-formats-examples/target/classes/test.fake
#15 488.1 Success
#15 488.1 Executing SubResolutionExample
#15 488.1 Initializing file: /bio-formats-build/bio-formats-examples/target/classes/test&resolutions=4.fake
#15 488.1 2026-01-01 00:16:20,769 [ExampleSuite.main()] INFO loci.formats.ImageReader - FakeReader initializing /bio-formats-build/bio-formats-examples/target/classes/test&resolutions=4.fake
#15 488.1 Series count = 1
#15 488.1 Resolution count for series #0 = 4
#15 488.1 Resolution #0 dimensions = 512 x 512
#15 488.1 Resolution #1 dimensions = 256 x 256
#15 488.1 Resolution #2 dimensions = 128 x 128
#15 488.1 Resolution #3 dimensions = 64 x 64
#15 488.1 Success
#15 488.1 Executing GeneratePyramidResolutions
#15 488.1 2026-01-01 00:16:20,770 [ExampleSuite.main()] INFO loci.formats.ImageReader - FakeReader initializing /bio-formats-build/bio-formats-examples/target/classes/test&sizeX=1024&sizeY=1024.fake
#15 488.1 Writing image to '/bio-formats-build/bio-formats-examples/target/classes/generatedPyramid.ome.tiff'...
#15 488.2 Done.
#15 488.2 Success
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#15 488.2 [[1;34mINFO[m] Installing /bio-formats-build/bio-formats-examples/pom.xml to /home/build/.m2/repository/ome/bio-formats-examples/8.4.0-SNAPSHOT/bio-formats-examples-8.4.0-SNAPSHOT.pom
#15 488.2 [[1;34mINFO[m] Installing /bio-formats-build/bio-formats-examples/target/bio-formats-examples-8.4.0-SNAPSHOT-sources.jar to /home/build/.m2/repository/ome/bio-formats-examples/8.4.0-SNAPSHOT/bio-formats-examples-8.4.0-SNAPSHOT-sources.jar
#15 488.2 [[1;34mINFO[m]
#15 488.2 [[1;34mINFO[m] [1m-------------------< [0;36mome:bio-formats-documentation[0;1m >--------------------[m
#15 488.2 [[1;34mINFO[m] [1mBuilding Bio-Formats documentation 8.4.0-SNAPSHOT [22/24][m
#15 488.2 [[1;34mINFO[m] [1m--------------------------------[ jar ]---------------------------------[m
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#15 488.9 [[1;34mINFO[m]
#15 488.9 [[1;34mINFO[m] [1m--- [0;32mmaven-clean-plugin:3.1.0:clean[m [1m(default-clean)[m @ [36mbio-formats-documentation[0;1m ---[m
#15 488.9 [[1;34mINFO[m]
#15 488.9 [[1;34mINFO[m] [1m--- [0;32mmaven-resources-plugin:3.1.0:copy-resources[m [1m(copy-configuration)[m @ [36mbio-formats-documentation[0;1m ---[m
#15 489.0 [[1;34mINFO[m] Using 'UTF-8' encoding to copy filtered resources.
#15 489.0 [[1;34mINFO[m] Copying 1 resource
#15 489.0 [[1;34mINFO[m] Copying 117 resources
#15 489.0 [[1;34mINFO[m]
#15 489.0 [[1;34mINFO[m] [1m--- [0;32mbuild-helper-maven-plugin:3.0.0:parse-version[m [1m(parse-version)[m @ [36mbio-formats-documentation[0;1m ---[m
#15 489.1 [[1;34mINFO[m]
#15 489.1 [[1;34mINFO[m] [1m--- [0;32mmaven-dependency-plugin:3.1.1:unpack[m [1m(unpack-ome-xml)[m @ [36mbio-formats-documentation[0;1m ---[m
#15 489.1 Downloading from central: https://repo.maven.apache.org/maven2/org/apache/maven/reporting/maven-reporting-impl/2.3/maven-reporting-impl-2.3.pom
#15 489.1 Progress (1): 4.1 kB
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#15 489.2 Downloading from central: https://repo.maven.apache.org/maven2/org/apache/maven/shared/maven-shared-utils/0.6/maven-shared-utils-0.6.pom
#15 489.2 Progress (1): 4.1 kB
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#15 489.2 Downloading from central: https://repo.maven.apache.org/maven2/org/apache/maven/doxia/doxia-sink-api/1.2/doxia-sink-api-1.2.pom
#15 489.3 Progress (1): 1.6 kB
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#15 489.3 Downloading from central: https://repo.maven.apache.org/maven2/org/apache/maven/doxia/doxia/1.2/doxia-1.2.pom
#15 489.3 Progress (1): 4.1 kB
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#15 489.4 Downloading from central: https://repo.maven.apache.org/maven2/org/apache/maven/maven-parent/19/maven-parent-19.pom
#15 489.4 Progress (1): 4.1 kB
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#15 489.5 Downloading from central: https://repo.maven.apache.org/maven2/org/apache/maven/doxia/doxia-logging-api/1.2/doxia-logging-api-1.2.pom
#15 489.5 Progress (1): 1.6 kB
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#15 489.5 Downloading from central: https://repo.maven.apache.org/maven2/org/apache/maven/doxia/doxia-core/1.2/doxia-core-1.2.pom
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#15 489.6 Downloading from central: https://repo.maven.apache.org/maven2/xerces/xercesImpl/2.9.1/xercesImpl-2.9.1.pom
#15 489.7 Progress (1): 1.4 kB
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#15 489.7 Downloading from central: https://repo.maven.apache.org/maven2/org/apache/maven/doxia/doxia-site-renderer/1.2/doxia-site-renderer-1.2.pom
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#15 489.8 Downloading from central: https://repo.maven.apache.org/maven2/org/apache/maven/doxia/doxia-sitetools/1.2/doxia-sitetools-1.2.pom
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#15 489.9 Downloading from central: https://repo.maven.apache.org/maven2/org/apache/maven/doxia/doxia-decoration-model/1.2/doxia-decoration-model-1.2.pom
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#15 489.9 Downloading from central: https://repo.maven.apache.org/maven2/org/apache/maven/doxia/doxia-module-xhtml/1.2/doxia-module-xhtml-1.2.pom
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#15 490.0 Downloading from central: https://repo.maven.apache.org/maven2/org/apache/maven/doxia/doxia-modules/1.2/doxia-modules-1.2.pom
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#15 490.1 Downloading from central: https://repo.maven.apache.org/maven2/org/apache/maven/doxia/doxia-module-fml/1.2/doxia-module-fml-1.2.pom
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#15 490.2 Downloading from central: https://repo.maven.apache.org/maven2/org/apache/maven/doxia/doxia-sink-api/1.4/doxia-sink-api-1.4.pom
#15 490.2 Progress (1): 1.5 kB
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#15 490.3 Downloading from cent
#15 490.3 [output clipped, log limit 2MiB reached]
#15 494.4 WARNING: A restricted method in java.lang.System has been called
#15 494.4 WARNING: java.lang.System::load has been called by org.scijava.nativelib.NativeLibraryUtil in an unnamed module (file:/home/build/.m2/repository/org/scijava/native-lib-loader/2.4.0/native-lib-loader-2.4.0.jar)
#15 494.4 WARNING: Use --enable-native-access=ALL-UNNAMED to avoid a warning for callers in this module
#15 494.4 WARNING: Restricted methods will be blocked in a future release unless native access is enabled
#15 494.4
#15 540.3 SLF4J: No SLF4J providers were found.
#15 540.3 SLF4J: Defaulting to no-operation (NOP) logger implementation
#15 540.3 SLF4J: See https://www.slf4j.org/codes.html#noProviders for further details.
#15 540.8 WARNING: A Java agent has been loaded dynamically (/home/build/.m2/repository/net/bytebuddy/byte-buddy-agent/1.10.19/byte-buddy-agent-1.10.19.jar)
#15 540.8 WARNING: If a serviceability tool is in use, please run with -XX:+EnableDynamicAgentLoading to hide this warning
#15 540.8 WARNING: If a serviceability tool is not in use, please run with -Djdk.instrument.traceUsage for more information
#15 540.8 WARNING: Dynamic loading of agents will be disallowed by default in a future release
#15 DONE 548.8s
#16 [12/14] WORKDIR /bio-formats-build/bioformats
#16 DONE 0.0s
#17 [13/14] RUN ant jars tools
#17 0.944 Buildfile: /bio-formats-build/bioformats/build.xml
#17 1.509 [echo] isSnapshot = true
#17 3.615
#17 3.615 copy-jars:
#17 3.616
#17 3.616 deps-formats-api:
#17 3.698 [echo] isSnapshot = true
#17 3.752
#17 3.752 install-pom:
#17 3.927 [resolver:install] Installing /bio-formats-build/bioformats/pom.xml to /home/build/.m2/repository/ome/pom-bio-formats/8.4.0-SNAPSHOT/pom-bio-formats-8.4.0-SNAPSHOT.pom
#17 3.939 [resolver:install] Installing ome:pom-bio-formats:8.4.0-SNAPSHOT/maven-metadata.xml to /home/build/.m2/repository/ome/pom-bio-formats/8.4.0-SNAPSHOT/maven-metadata-local.xml
#17 3.943 [resolver:install] Installing ome:pom-bio-formats/maven-metadata.xml to /home/build/.m2/repository/ome/pom-bio-formats/maven-metadata-local.xml
#17 3.944
#17 3.944 jar-formats-api:
#17 4.056 [echo] isSnapshot = true
#17 4.232
#17 4.232 init-title:
#17 4.232 [echo] ----------=========== formats-api ===========----------
#17 4.232
#17 4.232 init-timestamp:
#17 4.240
#17 4.240 init:
#17 4.241
#17 4.241 copy-resources:
#17 4.242 [mkdir] Created dir: /bio-formats-build/bioformats/components/formats-api/build/classes
#17 4.257 [copy] Copying 2 files to /bio-formats-build/bioformats/components/formats-api/build/classes
#17 4.259
#17 4.259 compile:
#17 4.442 [resolver:resolve] Resolving artifacts
#17 4.469 [javac] Compiling 54 source files to /bio-formats-build/bioformats/components/formats-api/build/classes
#17 4.698 [javac] warning: [options] bootstrap class path is not set in conjunction with -source 8
#17 4.698 [javac] not setting the bootstrap class path may lead to class files that cannot run on JDK 8
#17 4.698 [javac] --release 8 is recommended instead of -source 8 -target 1.8 because it sets the bootstrap class path automatically
#17 4.698 [javac] warning: [options] source value 8 is obsolete and will be removed in a future release
#17 4.698 [javac] warning: [options] target value 8 is obsolete and will be removed in a future release
#17 4.699 [javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options.
#17 5.399 [javac] /bio-formats-build/bioformats/components/formats-api/src/loci/formats/FormatTools.java:52: warning: [deprecation] ReflectedUniverse in loci.common has been deprecated
#17 5.399 [javac] import loci.common.ReflectedUniverse;
#17 5.399 [javac] ^
#17 5.600 [javac] /bio-formats-build/bioformats/components/formats-api/src/loci/formats/CoreMetadata.java:150: warning: [deprecation] getCoreIndex() in IFormatReader has been deprecated
#17 5.600 [javac] int currentIndex = r.getCoreIndex();
#17 5.600 [javac] ^
#17 5.600 [javac] /bio-formats-build/bioformats/components/formats-api/src/loci/formats/CoreMetadata.java:151: warning: [deprecation] setCoreIndex(int) in IFormatReader has been deprecated
#17 5.600 [javac] r.setCoreIndex(coreIndex);
#17 5.600 [javac] ^
#17 5.600 [javac] /bio-formats-build/bioformats/components/formats-api/src/loci/formats/CoreMetadata.java:179: warning: [deprecation] setCoreIndex(int) in IFormatReader has been deprecated
#17 5.600 [javac] r.setCoreIndex(currentIndex);
#17 5.600 [javac] ^
#17 5.801 [javac] /bio-formats-build/bioformats/components/formats-api/src/loci/formats/FormatReader.java:1442: warning: [deprecation] setCoreIndex(int) in IFormatReader has been deprecated
#17 5.801 [javac] public void setCoreIndex(int no) {
#17 5.801 [javac] ^
#17 5.801 [javac] /bio-formats-build/bioformats/components/formats-api/src/loci/formats/FormatReader.java:1436: warning: [deprecation] getCoreIndex() in IFormatReader has been deprecated
#17 5.801 [javac] public int getCoreIndex() {
#17 5.801 [javac] ^
#17 5.801 [javac] /bio-formats-build/bioformats/components/formats-api/src/loci/formats/FormatReader.java:1362: warning: [deprecation] coreIndexToSeries(int) in IFormatReader has been deprecated
#17 5.801 [javac] public int coreIndexToSeries(int index)
#17 5.801 [javac] ^
#17 5.801 [javac] /bio-formats-build/bioformats/components/formats-api/src/loci/formats/FormatReader.java:1330: warning: [deprecation] seriesToCoreIndex(int) in IFormatReader has been deprecated
#17 5.801 [javac] public int seriesToCoreIndex(int series)
#17 5.801 [javac] ^
#17 5.801 [javac] /bio-formats-build/bioformats/components/formats-api/src/loci/formats/FormatReader.java:1208: warning: [deprecation] getCoreMetadataList() in IFormatReader has been deprecated
#17 5.802 [javac] public List<CoreMetadata> getCoreMetadataList() {
#17 5.802 [javac] ^
#17 5.802 [javac] /bio-formats-build/bioformats/components/formats-api/src/loci/formats/DelegateReader.java:132: warning: [deprecation] setCoreIndex(int) in IFormatReader has been deprecated
#17 5.802 [javac] if (nativeReaderInitialized) nativeReader.setCoreIndex(no);
#17 5.802 [javac] ^
#17 5.802 [javac] /bio-formats-build/bioformats/components/formats-api/src/loci/formats/DelegateReader.java:133: warning: [deprecation] setCoreIndex(int) in IFormatReader has been deprecated
#17 5.802 [javac] if (legacyReaderInitialized) legacyReader.setCoreIndex(no);
#17 5.802 [javac] ^
#17 5.902 [javac] /bio-formats-build/bioformats/components/formats-api/src/loci/formats/DelegateReader.java:309: warning: [deprecation] getCoreMetadataList() in IFormatReader has been deprecated
#17 5.902 [javac] core = new ArrayList<CoreMetadata>(nativeReader.getCoreMetadataList());
#17 5.903 [javac] ^
#17 5.903 [javac] /bio-formats-build/bioformats/components/formats-api/src/loci/formats/DelegateReader.java:314: warning: [deprecation] getCoreMetadataList() in IFormatReader has been deprecated
#17 5.903 [javac] core = new ArrayList<CoreMetadata>(legacyReader.getCoreMetadataList());
#17 5.903 [javac] ^
#17 5.903 [javac] /bio-formats-build/bioformats/components/formats-api/src/loci/formats/FormatTools.java:266: warning: [deprecation] URL(String) in URL has been deprecated
#17 5.903 [javac] Manifest manifest = new Manifest(new URL(manifestPath).openStream());
#17 5.903 [javac] ^
#17 6.003 [javac] /bio-formats-build/bioformats/components/formats-api/src/loci/formats/FormatTools.java:1294: warning: [deprecation] ReflectedUniverse in loci.common has been deprecated
#17 6.003 [javac] ReflectedUniverse r = new ReflectedUniverse();
#17 6.003 [javac] ^
#17 6.004 [javac] /bio-formats-build/bioformats/components/formats-api/src/loci/formats/FormatTools.java:1294: warning: [deprecation] ReflectedUniverse in loci.common has been deprecated
#17 6.004 [javac] ReflectedUniverse r = new ReflectedUniverse();
#17 6.004 [javac] ^
#17 6.104 [javac] /bio-formats-build/bioformats/components/formats-api/src/loci/formats/ImageReader.java:773: warning: [deprecation] setCoreIndex(int) in IFormatReader has been deprecated
#17 6.104 [javac] public void setCoreIndex(int no) {
#17 6.104 [javac] ^
#17 6.104 [javac] /bio-formats-build/bioformats/components/formats-api/src/loci/formats/ImageReader.java:767: warning: [deprecation] getCoreIndex() in IFormatReader has been deprecated
#17 6.104 [javac] public int getCoreIndex() {
#17 6.105 [javac] ^
#17 6.105 [javac] /bio-formats-build/bioformats/components/formats-api/src/loci/formats/ImageReader.java:783: warning: [deprecation] coreIndexToSeries(int) in IFormatReader has been deprecated
#17 6.105 [javac] public int coreIndexToSeries(int index) {
#17 6.105 [javac] ^
#17 6.105 [javac] /bio-formats-build/bioformats/components/formats-api/src/loci/formats/ImageReader.java:778: warning: [deprecation] seriesToCoreIndex(int) in IFormatReader has been deprecated
#17 6.105 [javac] public int seriesToCoreIndex(int series) {
#17 6.105 [javac] ^
#17 6.105 [javac] /bio-formats-build/bioformats/components/formats-api/src/loci/formats/ImageReader.java:587: warning: [deprecation] getCoreMetadataList() in IFormatReader has been deprecated
#17 6.105 [javac] public List<CoreMetadata> getCoreMetadataList() {
#17 6.105 [javac] ^
#17 6.105 [javac] /bio-formats-build/bioformats/components/formats-api/src/loci/formats/ImageReader.java:588: warning: [deprecation] getCoreMetadataList() in IFormatReader has been deprecated
#17 6.105 [javac] return getReader().getCoreMetadataList();
#17 6.105 [javac] ^
#17 6.105 [javac] /bio-formats-build/bioformats/components/formats-api/src/loci/formats/ImageReader.java:768: warning: [deprecation] getCoreIndex() in IFormatReader has been deprecated
#17 6.105 [javac] return getReader().getCoreIndex();
#17 6.105 [javac] ^
#17 6.105 [javac] /bio-formats-build/bioformats/components/formats-api/src/loci/formats/ImageReader.java:774: warning: [deprecation] setCoreIndex(int) in IFormatReader has been deprecated
#17 6.105 [javac] getReader().setCoreIndex(no);
#17 6.105 [javac] ^
#17 6.105 [javac] /bio-formats-build/bioformats/components/formats-api/src/loci/formats/ImageReader.java:779: warning: [deprecation] seriesToCoreIndex(int) in IFormatReader has been deprecated
#17 6.105 [javac] return getReader().seriesToCoreIndex(series);
#17 6.105 [javac] ^
#17 6.106 [javac] /bio-formats-build/bioformats/components/formats-api/src/loci/formats/ImageReader.java:784: warning: [deprecation] coreIndexToSeries(int) in IFormatReader has been deprecated
#17 6.106 [javac] return getReader().coreIndexToSeries(index);
#17 6.106 [javac] ^
#17 6.106 [javac] /bio-formats-build/bioformats/components/formats-api/src/loci/formats/ReaderWrapper.java:629: warning: [deprecation] setCoreIndex(int) in IFormatReader has been deprecated
#17 6.106 [javac] public void setCoreIndex(int no) {
#17 6.106 [javac] ^
#17 6.106 [javac] /bio-formats-build/bioformats/components/formats-api/src/loci/formats/ReaderWrapper.java:624: warning: [deprecation] getCoreIndex() in IFormatReader has been deprecated
#17 6.106 [javac] public int getCoreIndex() {
#17 6.106 [javac] ^
#17 6.106 [javac] /bio-formats-build/bioformats/components/formats-api/src/loci/formats/ReaderWrapper.java:639: warning: [deprecation] coreIndexToSeries(int) in IFormatReader has been deprecated
#17 6.106 [javac] public int coreIndexToSeries(int index) {
#17 6.106 [javac] ^
#17 6.106 [javac] /bio-formats-build/bioformats/components/formats-api/src/loci/formats/ReaderWrapper.java:634: warning: [deprecation] seriesToCoreIndex(int) in IFormatReader has been deprecated
#17 6.106 [javac] public int seriesToCoreIndex(int series) {
#17 6.106 [javac] ^
#17 6.106 [javac] /bio-formats-build/bioformats/components/formats-api/src/loci/formats/ReaderWrapper.java:537: warning: [deprecation] getCoreMetadataList() in IFormatReader has been deprecated
#17 6.106 [javac] public List<CoreMetadata> getCoreMetadataList() {
#17 6.106 [javac] ^
#17 6.106 [javac] /bio-formats-build/bioformats/components/formats-api/src/loci/formats/ReaderWrapper.java:539: warning: [deprecation] getCoreMetadataList() in IFormatReader has been deprecated
#17 6.106 [javac] List<CoreMetadata> oldcore = reader.getCoreMetadataList();
#17 6.106 [javac] ^
#17 6.106 [javac] /bio-formats-build/bioformats/components/formats-api/src/loci/formats/ReaderWrapper.java:625: warning: [deprecation] getCoreIndex() in IFormatReader has been deprecated
#17 6.106 [javac] return reader.getCoreIndex();
#17 6.106 [javac] ^
#17 6.106 [javac] /bio-formats-build/bioformats/components/formats-api/src/loci/formats/ReaderWrapper.java:630: warning: [deprecation] setCoreIndex(int) in IFormatReader has been deprecated
#17 6.107 [javac] reader.setCoreIndex(no);
#17 6.107 [javac] ^
#17 6.107 [javac] /bio-formats-build/bioformats/components/formats-api/src/loci/formats/ReaderWrapper.java:635: warning: [deprecation] seriesToCoreIndex(int) in IFormatReader has been deprecated
#17 6.107 [javac] return reader.seriesToCoreIndex(series);
#17 6.107 [javac] ^
#17 6.107 [javac] /bio-formats-build/bioformats/components/formats-api/src/loci/formats/ReaderWrapper.java:640: warning: [deprecation] coreIndexToSeries(int) in IFormatReader has been deprecated
#17 6.107 [javac] return reader.coreIndexToSeries(index);
#17 6.107 [javac] ^
#17 6.307 [javac] Note: Some input files use unchecked or unsafe operations.
#17 6.307 [javac] Note: Recompile with -Xlint:unchecked for details.
#17 6.307 [javac] 40 warnings
#17 6.327
#17 6.327 formats-api.jar:
#17 6.328 [mkdir] Created dir: /bio-formats-build/bioformats/artifacts
#17 6.354 [jar] Building jar: /bio-formats-build/bioformats/artifacts/formats-api.jar
#17 6.387 [resolver:install] Using default POM (ome:formats-api:8.4.0-SNAPSHOT)
#17 6.391 [resolver:install] Installing /bio-formats-build/bioformats/components/formats-api/pom.xml to /home/build/.m2/repository/ome/formats-api/8.4.0-SNAPSHOT/formats-api-8.4.0-SNAPSHOT.pom
#17 6.434 [resolver:install] Installing /bio-formats-build/bioformats/artifacts/formats-api.jar to /home/build/.m2/repository/ome/formats-api/8.4.0-SNAPSHOT/formats-api-8.4.0-SNAPSHOT.jar
#17 6.435 [resolver:install] Installing ome:formats-api:8.4.0-SNAPSHOT/maven-metadata.xml to /home/build/.m2/repository/ome/formats-api/8.4.0-SNAPSHOT/maven-metadata-local.xml
#17 6.437 [resolver:install] Installing ome:formats-api/maven-metadata.xml to /home/build/.m2/repository/ome/formats-api/maven-metadata-local.xml
#17 6.437
#17 6.437 deps-turbojpeg:
#17 6.437
#17 6.437 jar-turbojpeg:
#17 6.533 [echo] isSnapshot = true
#17 6.669
#17 6.669 init-title:
#17 6.669 [echo] ----------=========== turbojpeg ===========----------
#17 6.669
#17 6.669 init-timestamp:
#17 6.669
#17 6.669 init:
#17 6.669
#17 6.669 copy-resources:
#17 6.670 [mkdir] Created dir: /bio-formats-build/bioformats/components/forks/turbojpeg/build/classes
#17 6.671
#17 6.671 compile:
#17 6.680 [resolver:resolve] Resolving artifacts
#17 6.683 [javac] Compiling 10 source files to /bio-formats-build/bioformats/components/forks/turbojpeg/build/classes
#17 6.886 [javac] warning: [options] bootstrap class path is not set in conjunction with -source 8
#17 6.886 [javac] not setting the bootstrap class path may lead to class files that cannot run on JDK 8
#17 6.886 [javac] --release 8 is recommended instead of -source 8 -target 1.8 because it sets the bootstrap class path automatically
#17 6.886 [javac] warning: [options] source value 8 is obsolete and will be removed in a future release
#17 6.886 [javac] warning: [options] target value 8 is obsolete and will be removed in a future release
#17 6.886 [javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options.
#17 7.587 [javac] /bio-formats-build/bioformats/components/forks/turbojpeg/src/org/libjpegturbo/turbojpeg/TJCompressor.java:449: warning: [removal] finalize() in Object has been deprecated and marked for removal
#17 7.587 [javac] protected void finalize() throws Throwable {
#17 7.587 [javac] ^
#17 7.587 [javac] /bio-formats-build/bioformats/components/forks/turbojpeg/src/org/libjpegturbo/turbojpeg/TJCompressor.java:455: warning: [removal] finalize() in Object has been deprecated and marked for removal
#17 7.587 [javac] super.finalize();
#17 7.587 [javac] ^
#17 7.630 [javac] /bio-formats-build/bioformats/components/forks/turbojpeg/src/org/libjpegturbo/turbojpeg/TJDecompressor.java:504: warning: [removal] finalize() in Object has been deprecated and marked for removal
#17 7.630 [javac] protected void finalize() throws Throwable {
#17 7.630 [javac] ^
#17 7.630 [javac] /bio-formats-build/bioformats/components/forks/turbojpeg/src/org/libjpegturbo/turbojpeg/TJDecompressor.java:510: warning: [removal] finalize() in Object has been deprecated and marked for removal
#17 7.630 [javac] super.finalize();
#17 7.630 [javac] ^
#17 7.630 [javac] 8 warnings
#17 7.630
#17 7.630 jar:
#17 7.634 [jar] Building jar: /bio-formats-build/bioformats/artifacts/turbojpeg.jar
#17 7.823 [resolver:install] Using default POM (ome:turbojpeg:8.4.0-SNAPSHOT)
#17 7.830 [resolver:install] Installing /bio-formats-build/bioformats/components/forks/turbojpeg/pom.xml to /home/build/.m2/repository/ome/turbojpeg/8.4.0-SNAPSHOT/turbojpeg-8.4.0-SNAPSHOT.pom
#17 7.833 [resolver:install] Installing /bio-formats-build/bioformats/artifacts/turbojpeg.jar to /home/build/.m2/repository/ome/turbojpeg/8.4.0-SNAPSHOT/turbojpeg-8.4.0-SNAPSHOT.jar
#17 7.834 [resolver:install] Installing ome:turbojpeg:8.4.0-SNAPSHOT/maven-metadata.xml to /home/build/.m2/repository/ome/turbojpeg/8.4.0-SNAPSHOT/maven-metadata-local.xml
#17 7.838 [resolver:install] Installing ome:turbojpeg/maven-metadata.xml to /home/build/.m2/repository/ome/turbojpeg/maven-metadata-local.xml
#17 7.839
#17 7.839 deps-formats-bsd:
#17 7.839
#17 7.839 jar-formats-bsd:
#17 7.948 [echo] isSnapshot = true
#17 8.107
#17 8.107 init-title:
#17 8.108 [echo] ----------=========== formats-bsd ===========----------
#17 8.108
#17 8.108 init-timestamp:
#17 8.108
#17 8.108 init:
#17 8.108
#17 8.108 copy-resources:
#17 8.108 [mkdir] Created dir: /bio-formats-build/bioformats/components/formats-bsd/build/classes
#17 8.112 [copy] Copying 1 file to /bio-formats-build/bioformats/components/formats-bsd/build/classes
#17 8.112
#17 8.112 compile:
#17 8.342 [resolver:resolve] Resolving artifacts
#17 8.368 [javac] Compiling 177 source files to /bio-formats-build/bioformats/components/formats-bsd/build/classes
#17 8.576 [javac] warning: [options] bootstrap class path is not set in conjunction with -source 8
#17 8.576 [javac] not setting the bootstrap class path may lead to class files that cannot run on JDK 8
#17 8.576 [javac] --release 8 is recommended instead of -source 8 -target 1.8 because it sets the bootstrap class path automatically
#17 8.576 [javac] warning: [options] source value 8 is obsolete and will be removed in a future release
#17 8.576 [javac] warning: [options] target value 8 is obsolete and will be removed in a future release
#17 8.576 [javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options.
#17 9.777 [javac] /bio-formats-build/bioformats/components/formats-bsd/src/loci/formats/in/TiffJAIReader.java:45: warning: [deprecation] ReflectedUniverse in loci.common has been deprecated
#17 9.777 [javac] import loci.common.ReflectedUniverse;
#17 9.777 [javac] ^
#17 10.18 [javac] /bio-formats-build/bioformats/components/formats-bsd/src/loci/formats/DimensionSwapper.java:297: warning: [deprecation] getCoreMetadataList() in IFormatReader has been deprecated
#17 10.18 [javac] core.size() != reader.getCoreMetadataList().size())
#17 10.18 [javac] ^
#17 10.18 [javac] /bio-formats-build/bioformats/components/formats-bsd/src/loci/formats/DimensionSwapper.java:301: warning: [deprecation] getCoreMetadataList() in IFormatReader has been deprecated
#17 10.18 [javac] List<CoreMetadata> oldcore = reader.getCoreMetadataList();
#17 10.18 [javac] ^
#17 10.18 [javac] /bio-formats-build/bioformats/components/formats-bsd/src/loci/formats/FileStitcher.java:581: warning: [deprecation] getCoreMetadataList() in IFormatReader has been deprecated
#17 10.18 [javac] int n = reader.getCoreMetadataList().size();
#17 10.18 [javac] ^
#17 10.18 [javac] /bio-formats-build/bioformats/components/formats-bsd/src/loci/formats/FileStitcher.java:602: warning: [deprecation] setCoreIndex(int) in IFormatReader has been deprecated
#17 10.18 [javac] reader.setCoreIndex(coreIndex);
#17 10.18 [javac] ^
#17 10.18 [javac] /bio-formats-build/bioformats/components/formats-bsd/src/loci/formats/FileStitcher.java:609: warning: [deprecation] getCoreMetadataList() in IFormatReader has been deprecated
#17 10.18 [javac] int n = reader.getCoreMetadataList().size();
#17 10.18 [javac] ^
#17 10.18 [javac] /bio-formats-build/bioformats/components/formats-bsd/src/loci/formats/FileStitcher.java:620: warning: [deprecation] getCoreMetadataList() in IFormatReader has been deprecated
#17 10.18 [javac] int n = reader.getCoreMetadataList().size();
#17 10.18 [javac] ^
#17 10.18 [javac] /bio-formats-build/bioformats/components/formats-bsd/src/loci/formats/FileStitcher.java:621: warning: [deprecation] seriesToCoreIndex(int) in IFormatReader has been deprecated
#17 10.18 [javac] if (n > 1 || noStitch) return reader.seriesToCoreIndex(series);
#17 10.18 [javac] ^
#17 10.18 [javac] /bio-formats-build/bioformats/components/formats-bsd/src/loci/formats/FileStitcher.java:628: warning: [deprecation] getCoreMetadataList() in IFormatReader has been deprecated
#17 10.18 [javac] int n = reader.getCoreMetadataList().size();
#17 10.18 [javac] ^
#17 10.18 [javac] /bio-formats-build/bioformats/components/formats-bsd/src/loci/formats/FileStitcher.java:629: warning: [deprecation] coreIndexToSeries(int) in IFormatReader has been deprecated
#17 10.18 [javac] if (n > 1 || noStitch) return reader.coreIndexToSeries(index);
#17 10.18 [javac] ^
#17 10.18 [javac] /bio-formats-build/bioformats/components/formats-bsd/src/loci/formats/FileStitcher.java:637: warning: [deprecation] getCoreMetadataList() in IFormatReader has been deprecated
#17 10.18 [javac] int n = reader.getCoreMetadataList().size();
#17 10.18 [javac] ^
#17 10.18 [javac] /bio-formats-build/bioformats/components/formats-bsd/src/loci/formats/FileStitcher.java:638: warning: [deprecation] setCoreIndex(int) in IFormatReader has been deprecated
#17 10.18 [javac] if (n > 1 || noStitch) reader.setCoreIndex(no);
#17 10.18 [javac] ^
#17 10.18 [javac] /bio-formats-build/bioformats/components/formats-bsd/src/loci/formats/FileStitcher.java:649: warning: [deprecation] getCoreIndex() in IFormatReader has been deprecated
#17 10.18 [javac] return reader.getCoreIndex() > 0 ? reader.getCoreIndex() : coreIndex;
#17 10.18 [javac] ^
#17 10.18 [javac] /bio-formats-build/bioformats/components/formats-bsd/src/loci/formats/FileStitcher.java:649: warning: [deprecation] getCoreIndex() in IFormatReader has been deprecated
#17 10.18 [javac] return reader.getCoreIndex() > 0 ? reader.getCoreIndex() : coreIndex;
#17 10.18 [javac] ^
#17 10.18 [javac] /bio-formats-build/bioformats/components/formats-bsd/src/loci/formats/FileStitcher.java:873: warning: [deprecation] getCoreMetadataList() in IFormatReader has been deprecated
#17 10.18 [javac] return noStitch ? reader.getCoreMetadataList() : core;
#17 10.18 [javac] ^
#17 10.18 [javac] /bio-formats-build/bioformats/components/formats-bsd/src/loci/formats/FileStitcher.java:1096: warning: [deprecation] getCoreMetadataList() in IFormatReader has been deprecated
#17 10.18 [javac] if (reader.getCoreMetadataList().size() > 1 && externals.length > 1) {
#17 10.18 [javac] ^
#17 10.18 [javac] /bio-formats-build/bioformats/components/formats-bsd/src/loci/formats/FileStitcher.java:1121: warning: [deprecation] getCoreMetadataList() in IFormatReader has been deprecated
#17 10.18 [javac] seriesCount = reader.getCoreMetadataList().size();
#17 10.18 [javac] ^
#17 10.18 [javac] /bio-formats-build/bioformats/components/formats-bsd/src/loci/formats/FileStitcher.java:1211: warning: [deprecation] getCoreMetadataList() in IFormatReader has been deprecated
#17 10.18 [javac] if (reader.getCoreMetadataList().size() == 1 && getSeriesCount() > 1) {
#17 10.18 [javac] ^
#17 10.18 [javac] /bio-formats-build/bioformats/components/formats-bsd/src/loci/formats/FileStitcher.java:1229: warning: [deprecation] getCoreMetadataList() in IFormatReader has been deprecated
#17 10.18 [javac] if (reader.getCoreMetadataList().size() > 1) return 0;
#17 10.18 [javac] ^
#17 10.28 [javac] /bio-formats-build/bioformats/components/formats-bsd/src/loci/formats/FileStitcher.java:1385: warning: [deprecation] getCoreMetadataList() in IFormatReader has been deprecated
#17 10.28 [javac] r.setCoreIndex(reader.getCoreMetadataList().size() > 1 ? sno : 0);
#17 10.28 [javac] ^
#17 10.38 [javac] /bio-formats-build/bioformats/components/formats-bsd/src/loci/formats/MinMaxCalculator.java:387: warning: [deprecation] getCoreMetadataList() in IFormatReader has been deprecated
#17 10.38 [javac] int seriesCount = unwrap().getCoreMetadataList().size();
#17 10.38 [javac] ^
#17 10.38 [javac] /bio-formats-build/bioformats/components/formats-bsd/src/loci/formats/UpgradeChecker.java:230: warning: [deprecation] URL(String) in URL has been deprecated
#17 10.38 [javac] URLConnection conn = new URL(query.toString()).openConnection();
#17 10.38 [javac] ^
#17 10.38 [javac] /bio-formats-build/bioformats/components/formats-bsd/src/loci/formats/UpgradeChecker.java:314: warning: [deprecation] URL(String) in URL has been deprecated
#17 10.38 [javac] URL url = new URL(urlPath);
#17 10.38 [javac] ^
#17 10.48 [javac] /bio-formats-build/bioformats/components/formats-bsd/src/loci/formats/codec/NikonCodec.java:194: warning: [deprecation] BitWriter in loci.formats.codec has been deprecated
#17 10.48 [javac] BitWriter out = new BitWriter();
#17 10.48 [javac] ^
#17 10.48 [javac] /bio-formats-build/bioformats/components/formats-bsd/src/loci/formats/codec/NikonCodec.java:194: warning: [deprecation] BitWriter in loci.formats.codec has been deprecated
#17 10.48 [javac] BitWriter out = new BitWriter();
#17 10.48 [javac] ^
#17 10.58 [javac] /bio-formats-build/bioformats/components/formats-bsd/src/loci/formats/dicom/DicomTag.java:537: warning: [deprecation] Double(String) in Double has been deprecated
#17 10.58 [javac] return new Double(v);
#17 10.58 [javac] ^
#17 11.18 [javac] /bio-formats-build/bioformats/components/formats-bsd/src/loci/formats/in/DicomReader.java:2129: warning: [deprecation] Double(String) in Double has been deprecated
#17 11.18 [javac] return FormatTools.getPhysicalSizeX(new Double(pixelSizeX), UNITS.MILLIMETER);
#17 11.18 [javac] ^
#17 11.18 [javac] /bio-formats-build/bioformats/components/formats-bsd/src/loci/formats/in/DicomReader.java:2136: warning: [deprecation] Double(String) in Double has been deprecated
#17 11.18 [javac] return FormatTools.getPhysicalSizeY(new Double(pixelSizeY), UNITS.MILLIMETER);
#17 11.18 [javac] ^
#17 11.18 [javac] /bio-formats-build/bioformats/components/formats-bsd/src/loci/formats/in/DicomReader.java:2143: warning: [deprecation] Double(double) in Double has been deprecated
#17 11.18 [javac] return FormatTools.getPhysicalSizeZ(new Double(pixelSizeZ), UNITS.MILLIMETER);
#17 11.18 [javac] ^
#17 11.28 [javac] /bio-formats-build/bioformats/components/formats-bsd/src/loci/formats/in/ICSReader.java:1142: warning: [deprecation] Integer(int) in Integer has been deprecated
#17 11.28 [javac] channelNames.put(new Integer(channelNames.size()), value);
#17 11.28 [javac] ^
#17 11.48 [javac] /bio-formats-build/bioformats/components/formats-bsd/src/loci/formats/in/OMETiffReader.java:622: warning: [deprecation] getCoreMetadataList() in IFormatReader has been deprecated
#17 11.48 [javac] OMETiffCoreMetadata baseCore = new OMETiffCoreMetadata(reader.getCoreMetadataList().get(0));
#17 11.48 [javac] ^
#17 11.48 [javac] /bio-formats-build/bioformats/components/formats-bsd/src/loci/formats/in/PGMReader.java:158: warning: [deprecation] StreamTokenizer(InputStream) in StreamTokenizer has been deprecated
#17 11.48 [javac] StreamTokenizer st = new StreamTokenizer(in);
#17 11.48 [javac] ^
#17 11.58 [javac] /bio-formats-build/bioformats/components/formats-bsd/src/loci/formats/in/SlideBook7Reader.java:3095: warning: [deprecation] Double(double) in Double has been deprecated
#17 11.58 [javac] store.setPlaneExposureTime(new Time(new Double(expTime), UNITS.MILLISECOND), capture, imageIndex);
#17 11.58 [javac] ^
#17 11.58 [javac] /bio-formats-build/bioformats/components/formats-bsd/src/loci/formats/in/TiffDelegateReader.java:95: warning: [deprecation] getCoreMetadataList() in IFormatReader has been deprecated
#17 11.58 [javac] core = new ArrayList<CoreMetadata>(nativeReader.getCoreMetadataList());
#17 11.58 [javac] ^
#17 11.58 [javac] /bio-formats-build/bioformats/components/formats-bsd/src/loci/formats/in/TiffJAIReader.java:74: warning: [deprecation] ReflectedUniverse in loci.common has been deprecated
#17 11.58 [javac] protected ReflectedUniverse r;
#17 11.58 [javac] ^
#17 11.58 [javac] /bio-formats-build/bioformats/components/formats-bsd/src/loci/formats/in/TiffJAIReader.java:103: warning: [deprecation] ReflectedUniverse in loci.common has been deprecated
#17 11.58 [javac] r = new ReflectedUniverse();
#17 11.58 [javac] ^
#17 11.68 [javac] /bio-formats-build/bioformats/components/formats-bsd/src/loci/formats/out/DicomWriter.java:1043: warning: [deprecation] NM in UNITS has been deprecated
#17 11.68 [javac] wavelength.value = new float[] {wave == null ? 1f : wave.value(UNITS.NM).floatValue()};
#17 11.68 [javac] ^
#17 11.68 [javac] /bio-formats-build/bioformats/components/formats-bsd/src/loci/formats/out/DicomWriter.java:1075: warning: [deprecation] MM in UNITS has been deprecated
#17 11.68 [javac] double pz = physicalZ.value(UNITS.MM).doubleValue();
#17 11.68 [javac] ^
#17 11.68 [javac] /bio-formats-build/bioformats/components/formats-bsd/src/loci/formats/out/DicomWriter.java:1089: warning: [deprecation] MM in UNITS has been deprecated
#17 11.68 [javac] double px = physicalX == null ? 1.0 : physicalX.value(UNITS.MM).doubleValue();
#17 11.68 [javac] ^
#17 11.68 [javac] /bio-formats-build/bioformats/components/formats-bsd/src/loci/formats/out/DicomWriter.java:1090: warning: [deprecation] MM in UNITS has been deprecated
#17 11.68 [javac] double py = physicalY == null ? 1.0 : physicalY.value(UNITS.MM).doubleValue();
#17 11.68 [javac] ^
#17 11.68 [javac] /bio-formats-build/bioformats/components/formats-bsd/src/loci/formats/out/DicomWriter.java:1111: warning: [deprecation] MM in UNITS has been deprecated
#17 11.68 [javac] volumeWidth.value = new float[] {physicalX == null ? 1f : physicalX.value(UNITS.MM).floatValue() * width};
#17 11.68 [javac] ^
#17 11.68 [javac] /bio-formats-build/bioformats/components/formats-bsd/src/loci/formats/out/DicomWriter.java:1115: warning: [deprecation] MM in UNITS has been deprecated
#17 11.68 [javac] volumeHeight.value = new float[] {physicalY == null ? 1f : physicalY.value(UNITS.MM).floatValue() * height};
#17 11.68 [javac] ^
#17 11.68 [javac] /bio-formats-build/bioformats/components/formats-bsd/src/loci/formats/out/DicomWriter.java:1121: warning: [deprecation] MM in UNITS has been deprecated
#17 11.68 [javac] volumeDepth.value = new float[] {physicalZ == null ? 1f : physicalZ.value(UNITS.MM).floatValue() * sizeZ};
#17 11.68 [javac] ^
#17 11.68 [javac] /bio-formats-build/bioformats/components/formats-bsd/src/loci/formats/out/DicomWriter.java:1169: warning: [deprecation] MM in UNITS has been deprecated
#17 11.68 [javac] double ox = physicalX.value(UNITS.MM).floatValue() * width;
#17 11.68 [javac] ^
#17 11.68 [javac] /bio-formats-build/bioformats/components/formats-bsd/src/loci/formats/out/DicomWriter.java:1174: warning: [deprecation] MM in UNITS has been deprecated
#17 11.68 [javac] double oy = physicalY.value(UNITS.MM).floatValue() * height;
#17 11.68 [javac] ^
#17 11.78 [javac] /bio-formats-build/bioformats/components/formats-bsd/src/loci/formats/out/TiffWriter.java:223: warning: [deprecation] Integer(int) in Integer has been deprecated
#17 11.78 [javac] ifd.put(new Integer(IFD.TILE_WIDTH), new Long(getTileSizeX()));
#17 11.78 [javac] ^
#17 11.78 [javac] /bio-formats-build/bioformats/components/formats-bsd/src/loci/formats/out/TiffWriter.java:223: warning: [deprecation] Long(long) in Long has been deprecated
#17 11.78 [javac] ifd.put(new Integer(IFD.TILE_WIDTH), new Long(getTileSizeX()));
#17 11.78 [javac] ^
#17 11.78 [javac] /bio-formats-build/bioformats/components/formats-bsd/src/loci/formats/out/TiffWriter.java:224: warning: [deprecation] Integer(int) in Integer has been deprecated
#17 11.78 [javac] ifd.put(new Integer(IFD.TILE_LENGTH), new Long(getTileSizeY()));
#17 11.78 [javac] ^
#17 11.78 [javac] /bio-formats-build/bioformats/components/formats-bsd/src/loci/formats/out/TiffWriter.java:224: warning: [deprecation] Long(long) in Long has been deprecated
#17 11.78 [javac] ifd.put(new Integer(IFD.TILE_LENGTH), new Long(getTileSizeY()));
#17 11.78 [javac] ^
#17 11.78 [javac] /bio-formats-build/bioformats/components/formats-bsd/src/loci/formats/services/JPEGTurboServiceImpl.java:110: warning: [deprecation] loadNativeLibrary(Class<?>,String) in NativeLibraryUtil has been deprecated
#17 11.78 [javac] libraryLoaded = NativeLibraryUtil.loadNativeLibrary(TJ.class, "turbojpeg");
#17 11.78 [javac] ^
#17 11.87 [javac] /bio-formats-build/bioformats/components/formats-bsd/src/loci/formats/tools/AmiraParameters.java:320: warning: [deprecation] Double(double) in Double has been deprecated
#17 11.87 [javac] doubleResult[i] = new Double(result.get(i).doubleValue());
#17 11.87 [javac] ^
#17 11.87 [javac] /bio-formats-build/bioformats/components/formats-bsd/src/loci/formats/tools/AmiraParameters.java:342: warning: [deprecation] Double(double) in Double has been deprecated
#17 11.87 [javac] result[i] = new Double(readNumber().doubleValue());
#17 11.87 [javac] ^
#17 11.87 [javac] Note: Some input files use unchecked or unsafe operations.
#17 11.87 [javac] Note: Recompile with -Xlint:unchecked for details.
#17 11.87 [javac] 56 warnings
#17 11.87
#17 11.87 formats-bsd.jar:
#17 11.88 [jar] Building jar: /bio-formats-build/bioformats/artifacts/formats-bsd.jar
#17 12.00 [resolver:install] Using default POM (ome:formats-bsd:8.4.0-SNAPSHOT)
#17 12.00 [resolver:install] Installing /bio-formats-build/bioformats/components/formats-bsd/pom.xml to /home/build/.m2/repository/ome/formats-bsd/8.4.0-SNAPSHOT/formats-bsd-8.4.0-SNAPSHOT.pom
#17 12.02 [resolver:install] Installing /bio-formats-build/bioformats/artifacts/formats-bsd.jar to /home/build/.m2/repository/ome/formats-bsd/8.4.0-SNAPSHOT/formats-bsd-8.4.0-SNAPSHOT.jar
#17 12.02 [resolver:install] Installing ome:formats-bsd:8.4.0-SNAPSHOT/maven-metadata.xml to /home/build/.m2/repository/ome/formats-bsd/8.4.0-SNAPSHOT/maven-metadata-local.xml
#17 12.03 [resolver:install] Installing ome:formats-bsd/maven-metadata.xml to /home/build/.m2/repository/ome/formats-bsd/maven-metadata-local.xml
#17 12.03
#17 12.03 deps-formats-gpl:
#17 12.03
#17 12.03 jar-formats-gpl:
#17 12.12 [echo] isSnapshot = true
#17 12.26
#17 12.26 init-title:
#17 12.26 [echo] ----------=========== formats-gpl ===========----------
#17 12.26
#17 12.26 init-timestamp:
#17 12.26
#17 12.26 init:
#17 12.26
#17 12.26 copy-resources:
#17 12.26 [mkdir] Created dir: /bio-formats-build/bioformats/components/formats-gpl/build/classes
#17 12.26 [copy] Copying 2 files to /bio-formats-build/bioformats/components/formats-gpl/build/classes
#17 12.26
#17 12.26 compile:
#17 12.61 [resolver:resolve] Downloading https://repo1.maven.org/maven2/edu/ucar/cdm-core/5.6.0/cdm-core-5.6.0.pom
#17 13.39 [resolver:resolve] Downloading https://maven.scijava.org/content/groups/public/edu/ucar/cdm-core/5.6.0/cdm-core-5.6.0.pom
#17 13.77 [resolver:resolve] Downloaded https://maven.scijava.org/content/groups/public/edu/ucar/cdm-core/5.6.0/cdm-core-5.6.0.pom (0 B at 0.0 KB/sec)
#17 13.77 [resolver:resolve] Downloading https://repo1.maven.org/maven2/edu/ucar/netcdf-java-platform/5.6.0/netcdf-java-platform-5.6.0.pom
#17 14.04 [resolver:resolve] Downloading https://maven.scijava.org/content/groups/public/edu/ucar/netcdf-java-platform/5.6.0/netcdf-java-platform-5.6.0.pom
#17 14.16 [resolver:resolve] Downloaded https://maven.scijava.org/content/groups/public/edu/ucar/netcdf-java-platform/5.6.0/netcdf-java-platform-5.6.0.pom (0 B at 0.0 KB/sec)
#17 14.22 [resolver:resolve] Downloading https://repo1.maven.org/maven2/edu/ucar/httpservices/5.6.0/httpservices-5.6.0.pom
#17 14.42 [resolver:resolve] Downloading https://maven.scijava.org/content/groups/public/edu/ucar/httpservices/5.6.0/httpservices-5.6.0.pom
#17 14.54 [resolver:resolve] Downloaded https://maven.scijava.org/content/groups/public/edu/ucar/httpservices/5.6.0/httpservices-5.6.0.pom (0 B at 0.0 KB/sec)
#17 14.59 [resolver:resolve] Resolving artifacts
#17 14.60 [resolver:resolve] Downloading https://repo1.maven.org/maven2/edu/ucar/cdm-core/5.6.0/cdm-core-5.6.0.jar
#17 14.60 [resolver:resolve] Downloading https://repo1.maven.org/maven2/edu/ucar/httpservices/5.6.0/httpservices-5.6.0.jar
#17 14.83 [resolver:resolve] Downloading https://maven.scijava.org/content/groups/public/edu/ucar/cdm-core/5.6.0/cdm-core-5.6.0.jar
#17 14.83 [resolver:resolve] Downloading https://maven.scijava.org/content/groups/public/edu/ucar/httpservices/5.6.0/httpservices-5.6.0.jar
#17 15.19 [resolver:resolve] Downloaded https://maven.scijava.org/content/groups/public/edu/ucar/cdm-core/5.6.0/cdm-core-5.6.0.jar (0 B at 0.0 KB/sec)
#17 15.19 [resolver:resolve] Downloaded https://maven.scijava.org/content/groups/public/edu/ucar/httpservices/5.6.0/httpservices-5.6.0.jar (0 B at 0.0 KB/sec)
#17 15.21 [javac] Compiling 178 source files to /bio-formats-build/bioformats/components/formats-gpl/build/classes
#17 15.41 [javac] warning: [options] bootstrap class path is not set in conjunction with -source 8
#17 15.41 [javac] not setting the bootstrap class path may lead to class files that cannot run on JDK 8
#17 15.41 [javac] --release 8 is recommended instead of -source 8 -target 1.8 because it sets the bootstrap class path automatically
#17 15.41 [javac] warning: [options] source value 8 is obsolete and will be removed in a future release
#17 15.41 [javac] warning: [options] target value 8 is obsolete and will be removed in a future release
#17 15.41 [javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options.
#17 16.61 [javac] /bio-formats-build/bioformats/components/formats-gpl/src/loci/formats/in/MIASReader.java:50: warning: [deprecation] BitWriter in loci.formats.codec has been deprecated
#17 16.61 [javac] import loci.formats.codec.BitWriter;
#17 16.61 [javac] ^
#17 16.72 [javac] /bio-formats-build/bioformats/components/formats-gpl/src/loci/formats/in/TrestleReader.java:43: warning: [deprecation] BitWriter in loci.formats.codec has been deprecated
#17 16.72 [javac] import loci.formats.codec.BitWriter;
#17 16.72 [javac] ^
#17 18.82 [javac] /bio-formats-build/bioformats/components/formats-gpl/src/loci/formats/in/LeicaReader.java:1321: warning: non-varargs call of varargs method with inexact argument type for last parameter;
#17 18.82 [javac] LOGGER.trace("Parsing tokens: {}", tokens);
#17 18.82 [javac] ^
#17 18.82 [javac] cast to Object for a varargs call
#17 18.82 [javac] cast to Object[] for a non-varargs call and to suppress this warning
#17 18.92 [javac] /bio-formats-build/bioformats/components/formats-gpl/src/loci/formats/in/MIASReader.java:1269: warning: [deprecation] BitWriter in loci.formats.codec has been deprecated
#17 18.92 [javac] BitWriter bits = null;
#17 18.92 [javac] ^
#17 18.92 [javac] /bio-formats-build/bioformats/components/formats-gpl/src/loci/formats/in/MIASReader.java:1271: warning: [deprecation] BitWriter in loci.formats.codec has been deprecated
#17 18.92 [javac] bits = new BitWriter(planes[index].length / 8);
#17 18.92 [javac] ^
#17 19.22 [javac] /bio-formats-build/bioformats/components/formats-gpl/src/loci/formats/in/OlympusTileReader.java:196: warning: [deprecation] getCoreMetadataList() in IFormatReader has been deprecated
#17 19.22 [javac] CoreMetadata ms = new CoreMetadata(helperReader.getCoreMetadataList().get(0));
#17 19.22 [javac] ^
#17 19.62 [javac] /bio-formats-build/bioformats/components/formats-gpl/src/loci/formats/in/TissueFAXSReader.java:469: warning: [deprecation] getImmersion(String) in FormatReader has been deprecated
#17 19.62 [javac] store.setObjectiveImmersion(getImmersion(immersion), 0, index);
#17 19.62 [javac] ^
#17 19.62 [javac] /bio-formats-build/bioformats/components/formats-gpl/src/loci/formats/in/TissueFAXSReader.java:487: warning: [deprecation] getAcquisitionMode(String) in FormatReader has been deprecated
#17 19.62 [javac] AcquisitionMode mode = getAcquisitionMode(acquisitionMode);
#17 19.62 [javac] ^
#17 19.62 [javac] /bio-formats-build/bioformats/components/formats-gpl/src/loci/formats/in/TrestleReader.java:372: warning: [deprecation] BitWriter in loci.formats.codec has been deprecated
#17 19.62 [javac] BitWriter bits = new BitWriter(roiPixels.length / 8);
#17 19.62 [javac] ^
#17 19.62 [javac] /bio-formats-build/bioformats/components/formats-gpl/src/loci/formats/in/TrestleReader.java:372: warning: [deprecation] BitWriter in loci.formats.codec has been deprecated
#17 19.62 [javac] BitWriter bits = new BitWriter(roiPixels.length / 8);
#17 19.62 [javac] ^
#17 19.92 [javac] /bio-formats-build/bioformats/components/formats-gpl/src/loci/formats/services/NetCDFServiceImpl.java:170: warning: [deprecation] findVariable(String) in Group has been deprecated
#17 19.92 [javac] Variable variable = group.findVariable(variableName);
#17 19.92 [javac] ^
#17 19.92 [javac] /bio-formats-build/bioformats/components/formats-gpl/src/loci/formats/services/NetCDFServiceImpl.java:197: warning: [deprecation] findVariable(String) in Group has been deprecated
#17 19.92 [javac] Variable variable = group.findVariable(variableName);
#17 19.92 [javac] ^
#17 19.92 [javac] /bio-formats-build/bioformats/components/formats-gpl/src/loci/formats/services/NetCDFServiceImpl.java:200: warning: [deprecation] getAttributes() in Variable has been deprecated
#17 19.92 [javac] List<Attribute> attributes = variable.getAttributes();
#17 19.92 [javac] ^
#17 19.92 [javac] /bio-formats-build/bioformats/components/formats-gpl/src/loci/formats/services/NetCDFServiceImpl.java:238: warning: [deprecation] getName() in CDMNode has been deprecated
#17 19.92 [javac] String groupName = group.getName();
#17 19.92 [javac] ^
#17 19.92 [javac] /bio-formats-build/bioformats/components/formats-gpl/src/loci/formats/services/NetCDFServiceImpl.java:239: warning: [deprecation] getAttributes() in Group has been deprecated
#17 19.92 [javac] List<Attribute> attributes = group.getAttributes();
#17 19.92 [javac] ^
#17 19.92 [javac] /bio-formats-build/bioformats/components/formats-gpl/src/loci/formats/services/NetCDFServiceImpl.java:247: warning: [deprecation] getName() in CDMNode has been deprecated
#17 19.92 [javac] String variableName = variable.getName();
#17 19.92 [javac] ^
#17 19.92 [javac] /bio-formats-build/bioformats/components/formats-gpl/src/loci/formats/services/NetCDFServiceImpl.java:270: warning: [deprecation] findGroup(String) in Group has been deprecated
#17 19.92 [javac] Group nextParent = parent.findGroup(token);
#17 19.92 [javac] ^
#17 19.92 [javac] Note: Some input files use unchecked or unsafe operations.
#17 19.92 [javac] Note: Recompile with -Xlint:unchecked for details.
#17 19.92 [javac] 21 warnings
#17 19.93
#17 19.93 formats-gpl.jar:
#17 19.94 [jar] Building jar: /bio-formats-build/bioformats/artifacts/formats-gpl.jar
#17 20.08 [resolver:install] Using default POM (ome:formats-gpl:8.4.0-SNAPSHOT)
#17 20.09 [resolver:install] Installing /bio-formats-build/bioformats/components/formats-gpl/pom.xml to /home/build/.m2/repository/ome/formats-gpl/8.4.0-SNAPSHOT/formats-gpl-8.4.0-SNAPSHOT.pom
#17 20.09 [resolver:install] Installing /bio-formats-build/bioformats/artifacts/formats-gpl.jar to /home/build/.m2/repository/ome/formats-gpl/8.4.0-SNAPSHOT/formats-gpl-8.4.0-SNAPSHOT.jar
#17 20.09 [resolver:install] Installing ome:formats-gpl:8.4.0-SNAPSHOT/maven-metadata.xml to /home/build/.m2/repository/ome/formats-gpl/8.4.0-SNAPSHOT/maven-metadata-local.xml
#17 20.09 [resolver:install] Installing ome:formats-gpl/maven-metadata.xml to /home/build/.m2/repository/ome/formats-gpl/maven-metadata-local.xml
#17 20.09
#17 20.09 deps-bio-formats-plugins:
#17 20.09
#17 20.09 jar-bio-formats-plugins:
#17 20.19 [echo] isSnapshot = true
#17 20.34
#17 20.34 init-title:
#17 20.34 [echo] ----------=========== bio-formats_plugins ===========----------
#17 20.34
#17 20.34 init-timestamp:
#17 20.34
#17 20.34 init:
#17 20.34
#17 20.34 copy-resources:
#17 20.34 [mkdir] Created dir: /bio-formats-build/bioformats/components/bio-formats-plugins/build/classes
#17 20.34 [copy] Copying 3 files to /bio-formats-build/bioformats/components/bio-formats-plugins/build/classes
#17 20.34
#17 20.34 compile:
#17 20.60 [resolver:resolve] Resolving artifacts
#17 20.61 [javac] Compiling 70 source files to /bio-formats-build/bioformats/components/bio-formats-plugins/build/classes
#17 20.82 [javac] warning: [options] bootstrap class path is not set in conjunction with -source 8
#17 20.82 [javac] not setting the bootstrap class path may lead to class files that cannot run on JDK 8
#17 20.82 [javac] --release 8 is recommended instead of -source 8 -target 1.8 because it sets the bootstrap class path automatically
#17 20.82 [javac] warning: [options] source value 8 is obsolete and will be removed in a future release
#17 20.82 [javac] warning: [options] target value 8 is obsolete and will be removed in a future release
#17 20.82 [javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options.
#17 21.72 [javac] /bio-formats-build/bioformats/components/bio-formats-plugins/src/loci/plugins/in/ImportProcess.java:39: warning: [deprecation] ReflectedUniverse in loci.common has been deprecated
#17 21.72 [javac] import loci.common.ReflectedUniverse;
#17 21.72 [javac] ^
#17 21.72 [javac] /bio-formats-build/bioformats/components/bio-formats-plugins/src/loci/plugins/in/DisplayHandler.java:40: warning: [deprecation] ReflectedUniverse in loci.common has been deprecated
#17 21.72 [javac] import loci.common.ReflectedUniverse;
#17 21.72 [javac] ^
#17 22.12 [javac] /bio-formats-build/bioformats/components/bio-formats-plugins/src/loci/plugins/Updater.java:51: warning: [deprecation] STABLE_VERSION in UpgradeChecker has been deprecated
#17 22.12 [javac] "Stable build (" + UpgradeChecker.STABLE_VERSION + ")";
#17 22.12 [javac] ^
#17 22.22 [javac] /bio-formats-build/bioformats/components/bio-formats-plugins/src/loci/plugins/config/InstallWizard.java:119: warning: [deprecation] URL(String) in URL has been deprecated
#17 22.22 [javac] URL url = new URL(urlPath);
#17 22.22 [javac] ^
#17 22.32 [javac] /bio-formats-build/bioformats/components/bio-formats-plugins/src/loci/plugins/in/ImportProcess.java:632: warning: [deprecation] ReflectedUniverse in loci.common has been deprecated
#17 22.32 [javac] ReflectedUniverse r = new ReflectedUniverse();
#17 22.32 [javac] ^
#17 22.32 [javac] /bio-formats-build/bioformats/components/bio-formats-plugins/src/loci/plugins/in/ImportProcess.java:632: warning: [deprecation] ReflectedUniverse in loci.common has been deprecated
#17 22.32 [javac] ReflectedUniverse r = new ReflectedUniverse();
#17 22.32 [javac] ^
#17 22.42 [javac] /bio-formats-build/bioformats/components/bio-formats-plugins/src/loci/plugins/in/DisplayHandler.java:161: warning: [deprecation] ReflectedUniverse in loci.common has been deprecated
#17 22.42 [javac] ReflectedUniverse ru = new ReflectedUniverse();
#17 22.42 [javac] ^
#17 22.42 [javac] /bio-formats-build/bioformats/components/bio-formats-plugins/src/loci/plugins/in/DisplayHandler.java:161: warning: [deprecation] ReflectedUniverse in loci.common has been deprecated
#17 22.42 [javac] ReflectedUniverse ru = new ReflectedUniverse();
#17 22.42 [javac] ^
#17 22.62 [javac] /bio-formats-build/bioformats/components/bio-formats-plugins/src/loci/plugins/shortcut/ShortcutPanel.java:102: warning: [deprecation] URL(String) in URL has been deprecated
#17 22.62 [javac] url = new URL(path);
#17 22.62 [javac] ^
#17 22.78 [javac] Note: /bio-formats-build/bioformats/components/bio-formats-plugins/src/loci/plugins/config/ConfigWindow.java uses unchecked or unsafe operations.
#17 22.78 [javac] Note: Recompile with -Xlint:unchecked for details.
#17 22.78 [javac] 13 warnings
#17 22.78
#17 22.78 bio-formats-plugins.jar:
#17 22.79 [jar] Building jar: /bio-formats-build/bioformats/artifacts/bio-formats_plugins.jar
#17 22.82 [resolver:install] Using default POM (ome:bio-formats_plugins:8.4.0-SNAPSHOT)
#17 22.82 [resolver:install] Installing /bio-formats-build/bioformats/components/bio-formats-plugins/pom.xml to /home/build/.m2/repository/ome/bio-formats_plugins/8.4.0-SNAPSHOT/bio-formats_plugins-8.4.0-SNAPSHOT.pom
#17 22.91 [resolver:install] Installing /bio-formats-build/bioformats/artifacts/bio-formats_plugins.jar to /home/build/.m2/repository/ome/bio-formats_plugins/8.4.0-SNAPSHOT/bio-formats_plugins-8.4.0-SNAPSHOT.jar
#17 22.91 [resolver:install] Installing ome:bio-formats_plugins:8.4.0-SNAPSHOT/maven-metadata.xml to /home/build/.m2/repository/ome/bio-formats_plugins/8.4.0-SNAPSHOT/maven-metadata-local.xml
#17 22.92 [resolver:install] Installing ome:bio-formats_plugins/maven-metadata.xml to /home/build/.m2/repository/ome/bio-formats_plugins/maven-metadata-local.xml
#17 22.92
#17 22.92 deps-bio-formats-tools:
#17 22.92
#17 22.92 jar-bio-formats-tools:
#17 23.01 [echo] isSnapshot = true
#17 23.14
#17 23.14 init-title:
#17 23.14 [echo] ----------=========== bio-formats-tools ===========----------
#17 23.14
#17 23.14 init-timestamp:
#17 23.14
#17 23.14 init:
#17 23.14
#17 23.14 copy-resources:
#17 23.14 [mkdir] Created dir: /bio-formats-build/bioformats/components/bio-formats-tools/build/classes
#17 23.14
#17 23.14 compile:
#17 23.39 [resolver:resolve] Resolving artifacts
#17 23.40 [javac] Compiling 10 source files to /bio-formats-build/bioformats/components/bio-formats-tools/build/classes
#17 23.60 [javac] warning: [options] bootstrap class path is not set in conjunction with -source 8
#17 23.60 [javac] not setting the bootstrap class path may lead to class files that cannot run on JDK 8
#17 23.60 [javac] --release 8 is recommended instead of -source 8 -target 1.8 because it sets the bootstrap class path automatically
#17 23.60 [javac] warning: [options] source value 8 is obsolete and will be removed in a future release
#17 23.60 [javac] warning: [options] target value 8 is obsolete and will be removed in a future release
#17 23.60 [javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options.
#17 24.70 [javac] 4 warnings
#17 24.75
#17 24.75 bio-formats-tools.jar:
#17 24.75 [jar] Building jar: /bio-formats-build/bioformats/artifacts/bio-formats-tools.jar
#17 24.76 [resolver:install] Using default POM (ome:bio-formats-tools:8.4.0-SNAPSHOT)
#17 24.76 [resolver:install] Installing /bio-formats-build/bioformats/components/bio-formats-tools/pom.xml to /home/build/.m2/repository/ome/bio-formats-tools/8.4.0-SNAPSHOT/bio-formats-tools-8.4.0-SNAPSHOT.pom
#17 24.77 [resolver:install] Installing /bio-formats-build/bioformats/artifacts/bio-formats-tools.jar to /home/build/.m2/repository/ome/bio-formats-tools/8.4.0-SNAPSHOT/bio-formats-tools-8.4.0-SNAPSHOT.jar
#17 24.77 [resolver:install] Installing ome:bio-formats-tools:8.4.0-SNAPSHOT/maven-metadata.xml to /home/build/.m2/repository/ome/bio-formats-tools/8.4.0-SNAPSHOT/maven-metadata-local.xml
#17 24.77 [resolver:install] Installing ome:bio-formats-tools/maven-metadata.xml to /home/build/.m2/repository/ome/bio-formats-tools/maven-metadata-local.xml
#17 24.77
#17 24.77 deps-tests:
#17 24.77
#17 24.77 jar-tests:
#17 24.86 [echo] isSnapshot = true
#17 24.99
#17 24.99 init-title:
#17 24.99 [echo] ----------=========== bio-formats-testing-framework ===========----------
#17 24.99
#17 24.99 init-timestamp:
#17 24.99
#17 24.99 init:
#17 24.99
#17 24.99 copy-resources:
#17 24.99 [mkdir] Created dir: /bio-formats-build/bioformats/components/test-suite/build/classes
#17 24.99
#17 24.99 compile:
#17 25.29 [resolver:resolve] Downloading https://repo1.maven.org/maven2/org/kohsuke/file-leak-detector/1.18/file-leak-detector-1.18.pom
#17 25.39 [resolver:resolve] Downloading https://maven.scijava.org/content/groups/public/org/kohsuke/file-leak-detector/1.18/file-leak-detector-1.18.pom
#17 25.75 [resolver:resolve] Downloading https://artifacts.openmicroscopy.org/artifactory/maven/org/kohsuke/file-leak-detector/1.18/file-leak-detector-1.18.pom
#17 25.77 [resolver:resolve] Downloading https://artifacts.unidata.ucar.edu/repository/unidata-releases/org/kohsuke/file-leak-detector/1.18/file-leak-detector-1.18.pom
#17 26.19 [resolver:resolve] Downloading https://repo.jenkins-ci.org/releases/org/kohsuke/file-leak-detector/1.18/file-leak-detector-1.18.pom
#17 26.62 [resolver:resolve] Downloaded https://repo.jenkins-ci.org/releases/org/kohsuke/file-leak-detector/1.18/file-leak-detector-1.18.pom (0 B at 0.0 KB/sec)
#17 26.69 [resolver:resolve] Resolving artifacts
#17 26.70 [resolver:resolve] Downloading https://repo1.maven.org/maven2/org/kohsuke/file-leak-detector/1.18/file-leak-detector-1.18-jar-with-dependencies.jar
#17 26.77 [resolver:resolve] Downloading https://maven.scijava.org/content/groups/public/org/kohsuke/file-leak-detector/1.18/file-leak-detector-1.18-jar-with-dependencies.jar
#17 27.13 [resolver:resolve] Downloading https://artifacts.openmicroscopy.org/artifactory/maven/org/kohsuke/file-leak-detector/1.18/file-leak-detector-1.18-jar-with-dependencies.jar
#17 27.13 [resolver:resolve] Downloading https://artifacts.unidata.ucar.edu/repository/unidata-releases/org/kohsuke/file-leak-detector/1.18/file-leak-detector-1.18-jar-with-dependencies.jar
#17 27.54 [resolver:resolve] Downloading https://repo.jenkins-ci.org/releases/org/kohsuke/file-leak-detector/1.18/file-leak-detector-1.18-jar-with-dependencies.jar
#17 27.90 [resolver:resolve] Downloaded https://repo.jenkins-ci.org/releases/org/kohsuke/file-leak-detector/1.18/file-leak-detector-1.18-jar-with-dependencies.jar (0 B at 0.0 KB/sec)
#17 27.91 [javac] Compiling 23 source files to /bio-formats-build/bioformats/components/test-suite/build/classes
#17 28.11 [javac] warning: [options] bootstrap class path is not set in conjunction with -source 8
#17 28.11 [javac] not setting the bootstrap class path may lead to class files that cannot run on JDK 8
#17 28.11 [javac] --release 8 is recommended instead of -source 8 -target 1.8 because it sets the bootstrap class path automatically
#17 28.11 [javac] warning: [options] source value 8 is obsolete and will be removed in a future release
#17 28.11 [javac] warning: [options] target value 8 is obsolete and will be removed in a future release
#17 28.11 [javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options.
#17 29.12 [javac] /bio-formats-build/bioformats/components/test-suite/src/loci/tests/testng/Configuration.java:676: warning: [deprecation] getCoreIndex() in IFormatReader has been deprecated
#17 29.12 [javac] int index = unflattenedReader.getCoreIndex();
#17 29.12 [javac] ^
#17 29.12 [javac] /bio-formats-build/bioformats/components/test-suite/src/loci/tests/testng/Configuration.java:677: warning: [deprecation] setCoreIndex(int) in IFormatReader has been deprecated
#17 29.12 [javac] reader.setCoreIndex(index);
#17 29.12 [javac] ^
#17 29.42 [javac] /bio-formats-build/bioformats/components/test-suite/src/loci/tests/testng/FormatReaderTest.java:2348: warning: [deprecation] getCoreIndex() in IFormatReader has been deprecated
#17 29.42 [javac] config.setSeries(resolutionReader.getCoreIndex());
#17 29.42 [javac] ^
#17 29.42 [javac] /bio-formats-build/bioformats/components/test-suite/src/loci/tests/testng/FormatReaderTest.java:2514: warning: [deprecation] getCoreIndex() in IFormatReader has been deprecated
#17 29.42 [javac] config.setSeries(resolutionReader.getCoreIndex());
#17 29.42 [javac] ^
#17 29.68 [javac] /bio-formats-build/bioformats/components/test-suite/src/loci/tests/testng/OrderingListener.java:52: warning: [deprecation] getInstances() in IMethodInstance has been deprecated
#17 29.68 [javac] FormatReaderTest i1 = (FormatReaderTest) m1.getInstances()[0];
#17 29.68 [javac] ^
#17 29.68 [javac] /bio-formats-build/bioformats/components/test-suite/src/loci/tests/testng/OrderingListener.java:53: warning: [deprecation] getInstances() in IMethodInstance has been deprecated
#17 29.68 [javac] FormatReaderTest i2 = (FormatReaderTest) m2.getInstances()[0];
#17 29.68 [javac] ^
#17 29.68 [javac] Note: Some input files use unchecked or unsafe operations.
#17 29.68 [javac] Note: Recompile with -Xlint:unchecked for details.
#17 29.68 [javac] 10 warnings
#17 29.68
#17 29.68 tests.jar:
#17 29.68 [jar] Building jar: /bio-formats-build/bioformats/artifacts/bio-formats-testing-framework.jar
#17 29.70 [resolver:install] Using default POM (ome:test-suite:8.4.0-SNAPSHOT)
#17 29.70 [resolver:install] Installing /bio-formats-build/bioformats/components/test-suite/pom.xml to /home/build/.m2/repository/ome/test-suite/8.4.0-SNAPSHOT/test-suite-8.4.0-SNAPSHOT.pom
#17 29.72 [resolver:install] Installing /bio-formats-build/bioformats/artifacts/bio-formats-testing-framework.jar to /home/build/.m2/repository/ome/test-suite/8.4.0-SNAPSHOT/test-suite-8.4.0-SNAPSHOT.jar
#17 29.72 [resolver:install] Installing ome:test-suite:8.4.0-SNAPSHOT/maven-metadata.xml to /home/build/.m2/repository/ome/test-suite/8.4.0-SNAPSHOT/maven-metadata-local.xml
#17 29.72 [resolver:install] Installing ome:test-suite/maven-metadata.xml to /home/build/.m2/repository/ome/test-suite/maven-metadata-local.xml
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#17 29.72 deps-formats-api:
#17 29.77 [echo] isSnapshot = true
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#17 29.93 [resolver:install] Installing /bio-formats-build/bioformats/pom.xml to /home/build/.m2/repository/ome/pom-bio-formats/8.4.0-SNAPSHOT/pom-bio-formats-8.4.0-SNAPSHOT.pom
#17 29.93 [resolver:install] Installing ome:pom-bio-formats:8.4.0-SNAPSHOT/maven-metadata.xml to /home/build/.m2/repository/ome/pom-bio-formats/8.4.0-SNAPSHOT/maven-metadata-local.xml
#17 29.94 [resolver:install] Installing ome:pom-bio-formats/maven-metadata.xml to /home/build/.m2/repository/ome/pom-bio-formats/maven-metadata-local.xml
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#17 29.94 jar-formats-api:
#17 30.02 [echo] isSnapshot = true
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#17 30.15 [echo] ----------=========== formats-api ===========----------
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#17 30.31 [resolver:resolve] Resolving artifacts
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#17 30.32 formats-api.jar:
#17 30.33 [resolver:install] Using default POM (ome:formats-api:8.4.0-SNAPSHOT)
#17 30.34 [resolver:install] Installing /bio-formats-build/bioformats/components/formats-api/pom.xml to /home/build/.m2/repository/ome/formats-api/8.4.0-SNAPSHOT/formats-api-8.4.0-SNAPSHOT.pom
#17 30.34 [resolver:install] Installing /bio-formats-build/bioformats/artifacts/formats-api.jar to /home/build/.m2/repository/ome/formats-api/8.4.0-SNAPSHOT/formats-api-8.4.0-SNAPSHOT.jar
#17 30.34 [resolver:install] Installing ome:formats-api:8.4.0-SNAPSHOT/maven-metadata.xml to /home/build/.m2/repository/ome/formats-api/8.4.0-SNAPSHOT/maven-metadata-local.xml
#17 30.34 [resolver:install] Installing ome:formats-api/maven-metadata.xml to /home/build/.m2/repository/ome/formats-api/maven-metadata-local.xml
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#17 30.34 deps-turbojpeg:
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#17 30.55 [echo] ----------=========== turbojpeg ===========----------
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#17 30.57 [resolver:install] Using default POM (ome:turbojpeg:8.4.0-SNAPSHOT)
#17 30.57 [resolver:install] Installing /bio-formats-build/bioformats/components/forks/turbojpeg/pom.xml to /home/build/.m2/repository/ome/turbojpeg/8.4.0-SNAPSHOT/turbojpeg-8.4.0-SNAPSHOT.pom
#17 30.57 [resolver:install] Installing /bio-formats-build/bioformats/artifacts/turbojpeg.jar to /home/build/.m2/repository/ome/turbojpeg/8.4.0-SNAPSHOT/turbojpeg-8.4.0-SNAPSHOT.jar
#17 30.57 [resolver:install] Installing ome:turbojpeg:8.4.0-SNAPSHOT/maven-metadata.xml to /home/build/.m2/repository/ome/turbojpeg/8.4.0-SNAPSHOT/maven-metadata-local.xml
#17 30.58 [resolver:install] Installing ome:turbojpeg/maven-metadata.xml to /home/build/.m2/repository/ome/turbojpeg/maven-metadata-local.xml
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#17 30.78 [echo] ----------=========== formats-bsd ===========----------
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#17 30.99 formats-bsd.jar:
#17 31.02 [resolver:install] Using default POM (ome:formats-bsd:8.4.0-SNAPSHOT)
#17 31.02 [resolver:install] Installing /bio-formats-build/bioformats/components/formats-bsd/pom.xml to /home/build/.m2/repository/ome/formats-bsd/8.4.0-SNAPSHOT/formats-bsd-8.4.0-SNAPSHOT.pom
#17 31.02 [resolver:install] Installing /bio-formats-build/bioformats/artifacts/formats-bsd.jar to /home/build/.m2/repository/ome/formats-bsd/8.4.0-SNAPSHOT/formats-bsd-8.4.0-SNAPSHOT.jar
#17 31.02 [resolver:install] Installing ome:formats-bsd:8.4.0-SNAPSHOT/maven-metadata.xml to /home/build/.m2/repository/ome/formats-bsd/8.4.0-SNAPSHOT/maven-metadata-local.xml
#17 31.03 [resolver:install] Installing ome:formats-bsd/maven-metadata.xml to /home/build/.m2/repository/ome/formats-bsd/maven-metadata-local.xml
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#17 31.03 deps-formats-gpl:
#17 31.03
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#17 31.24 [echo] ----------=========== formats-gpl ===========----------
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#17 31.49 formats-gpl.jar:
#17 31.52 [resolver:install] Using default POM (ome:formats-gpl:8.4.0-SNAPSHOT)
#17 31.52 [resolver:install] Installing /bio-formats-build/bioformats/components/formats-gpl/pom.xml to /home/build/.m2/repository/ome/formats-gpl/8.4.0-SNAPSHOT/formats-gpl-8.4.0-SNAPSHOT.pom
#17 31.52 [resolver:install] Installing /bio-formats-build/bioformats/artifacts/formats-gpl.jar to /home/build/.m2/repository/ome/formats-gpl/8.4.0-SNAPSHOT/formats-gpl-8.4.0-SNAPSHOT.jar
#17 31.52 [resolver:install] Installing ome:formats-gpl:8.4.0-SNAPSHOT/maven-metadata.xml to /home/build/.m2/repository/ome/formats-gpl/8.4.0-SNAPSHOT/maven-metadata-local.xml
#17 31.52 [resolver:install] Installing ome:formats-gpl/maven-metadata.xml to /home/build/.m2/repository/ome/formats-gpl/maven-metadata-local.xml
#17 31.53
#17 31.53 deps-bio-formats-plugins:
#17 31.53
#17 31.53 jar-bio-formats-plugins:
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#17 31.73
#17 31.73 init-title:
#17 31.73 [echo] ----------=========== bio-formats_plugins ===========----------
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#17 32.00 [resolver:install] Using default POM (ome:bio-formats_plugins:8.4.0-SNAPSHOT)
#17 32.00 [resolver:install] Installing /bio-formats-build/bioformats/components/bio-formats-plugins/pom.xml to /home/build/.m2/repository/ome/bio-formats_plugins/8.4.0-SNAPSHOT/bio-formats_plugins-8.4.0-SNAPSHOT.pom
#17 32.00 [resolver:install] Installing /bio-formats-build/bioformats/artifacts/bio-formats_plugins.jar to /home/build/.m2/repository/ome/bio-formats_plugins/8.4.0-SNAPSHOT/bio-formats_plugins-8.4.0-SNAPSHOT.jar
#17 32.01 [resolver:install] Installing ome:bio-formats_plugins:8.4.0-SNAPSHOT/maven-metadata.xml to /home/build/.m2/repository/ome/bio-formats_plugins/8.4.0-SNAPSHOT/maven-metadata-local.xml
#17 32.01 [resolver:install] Installing ome:bio-formats_plugins/maven-metadata.xml to /home/build/.m2/repository/ome/bio-formats_plugins/maven-metadata-local.xml
#17 32.01
#17 32.01 deps-bio-formats-tools:
#17 32.01
#17 32.01 jar-bio-formats-tools:
#17 32.09 [echo] isSnapshot = true
#17 32.21
#17 32.21 init-title:
#17 32.21 [echo] ----------=========== bio-formats-tools ===========----------
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#17 32.45 [resolver:resolve] Resolving artifacts
#17 32.45
#17 32.45 bio-formats-tools.jar:
#17 32.46 [resolver:install] Using default POM (ome:bio-formats-tools:8.4.0-SNAPSHOT)
#17 32.46 [resolver:install] Installing /bio-formats-build/bioformats/components/bio-formats-tools/pom.xml to /home/build/.m2/repository/ome/bio-formats-tools/8.4.0-SNAPSHOT/bio-formats-tools-8.4.0-SNAPSHOT.pom
#17 32.46 [resolver:install] Installing /bio-formats-build/bioformats/artifacts/bio-formats-tools.jar to /home/build/.m2/repository/ome/bio-formats-tools/8.4.0-SNAPSHOT/bio-formats-tools-8.4.0-SNAPSHOT.jar
#17 32.46 [resolver:install] Installing ome:bio-formats-tools:8.4.0-SNAPSHOT/maven-metadata.xml to /home/build/.m2/repository/ome/bio-formats-tools/8.4.0-SNAPSHOT/maven-metadata-local.xml
#17 32.46 [resolver:install] Installing ome:bio-formats-tools/maven-metadata.xml to /home/build/.m2/repository/ome/bio-formats-tools/maven-metadata-local.xml
#17 32.47
#17 32.47 deps-tests:
#17 32.47
#17 32.47 jar-tests:
#17 32.55 [echo] isSnapshot = true
#17 32.67
#17 32.67 init-title:
#17 32.67 [echo] ----------=========== bio-formats-testing-framework ===========----------
#17 32.67
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#17 32.67
#17 32.67 init:
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#17 32.67
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#17 32.90 [resolver:resolve] Resolving artifacts
#17 32.91
#17 32.91 tests.jar:
#17 32.92 [resolver:install] Using default POM (ome:test-suite:8.4.0-SNAPSHOT)
#17 32.92 [resolver:install] Installing /bio-formats-build/bioformats/components/test-suite/pom.xml to /home/build/.m2/repository/ome/test-suite/8.4.0-SNAPSHOT/test-suite-8.4.0-SNAPSHOT.pom
#17 32.92 [resolver:install] Installing /bio-formats-build/bioformats/artifacts/bio-formats-testing-framework.jar to /home/build/.m2/repository/ome/test-suite/8.4.0-SNAPSHOT/test-suite-8.4.0-SNAPSHOT.jar
#17 32.92 [resolver:install] Installing ome:test-suite:8.4.0-SNAPSHOT/maven-metadata.xml to /home/build/.m2/repository/ome/test-suite/8.4.0-SNAPSHOT/maven-metadata-local.xml
#17 32.92 [resolver:install] Installing ome:test-suite/maven-metadata.xml to /home/build/.m2/repository/ome/test-suite/maven-metadata-local.xml
#17 32.93
#17 32.93 jars:
#17 32.93
#17 32.93 tools:
#17 32.93 [echo] ----------=========== bioformats_package ===========----------
#17 33.01 [echo] isSnapshot = true
#17 33.14
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#17 33.14
#17 33.14 bundle:
#17 33.38 [resolver:resolve] Resolving artifacts
#17 33.39 [unzip] Expanding: /home/build/.m2/repository/ome/bio-formats_plugins/8.4.0-SNAPSHOT/bio-formats_plugins-8.4.0-SNAPSHOT.jar into /bio-formats-build/bioformats/components/bundles/bioformats_package/build/unzip
#17 33.42 [unzip] Expanding: /home/build/.m2/repository/org/openmicroscopy/ome-common/6.1.2-SNAPSHOT/ome-common-6.1.2-SNAPSHOT.jar into /bio-formats-build/bioformats/components/bundles/bioformats_package/build/unzip
#17 33.44 [unzip] Expanding: /home/build/.m2/repository/io/minio/minio/5.0.2/minio-5.0.2.jar into /bio-formats-build/bioformats/components/bundles/bioformats_package/build/unzip
#17 33.46 [unzip] Expanding: /home/build/.m2/repository/com/google/http-client/google-http-client-xml/1.20.0/google-http-client-xml-1.20.0.jar into /bio-formats-build/bioformats/components/bundles/bioformats_package/build/unzip
#17 33.47 [unzip] Expanding: /home/build/.m2/repository/com/google/http-client/google-http-client/1.20.0/google-http-client-1.20.0.jar into /bio-formats-build/bioformats/components/bundles/bioformats_package/build/unzip
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#17 33.59 [unzip] Expanding: /home/build/.m2/repository/com/squareup/okio/okio/1.12.0/okio-1.12.0.jar into /bio-formats-build/bioformats/components/bundles/bioformats_package/build/unzip
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#17 33.79 [unzip] Expanding: /home/build/.m2/repository/com/fasterxml/jackson/core/jackson-core/2.14.2/jackson-core-2.14.2.jar into /bio-formats-build/bioformats/components/bundles/bioformats_package/build/unzip
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#17 34.59 [unzip] Expanding: /home/build/.m2/repository/org/openmicroscopy/ome-xml/6.5.2-SNAPSHOT/ome-xml-6.5.2-SNAPSHOT.jar into /bio-formats-build/bioformats/components/bundles/bioformats_package/build/unzip
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#17 34.84 [unzip] Expanding: /home/build/.m2/repository/ome/formats-bsd/8.4.0-SNAPSHOT/formats-bsd-8.4.0-SNAPSHOT.jar into /bio-formats-build/bioformats/components/bundles/bioformats_package/build/unzip
#17 34.90 [unzip] Expanding: /home/build/.m2/repository/ome/turbojpeg/8.4.0-SNAPSHOT/turbojpeg-8.4.0-SNAPSHOT.jar into /bio-formats-build/bioformats/components/bundles/bioformats_package/build/unzip
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#17 35.49 [unzip] Expanding: /home/build/.m2/repository/com/drewnoakes/metadata-extractor/2.18.0/metadata-extractor-2.18.0.jar into /bio-formats-build/bioformats/components/bundles/bioformats_package/build/unzip
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#17 35.59 [unzip] Expanding: /home/build/.m2/repository/ome/jxrlib-all/0.2.4/jxrlib-all-0.2.4.jar into /bio-formats-build/bioformats/components/bundles/bioformats_package/build/unzip
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#17 35.88 [unzip] Expanding: /home/build/.m2/repository/org/yaml/snakeyaml/2.0/snakeyaml-2.0.jar into /bio-formats-build/bioformats/components/bundles/bioformats_package/build/unzip
#17 35.93 [unzip] Expanding: /home/build/.m2/repository/ome/formats-gpl/8.4.0-SNAPSHOT/formats-gpl-8.4.0-SNAPSHOT.jar into /bio-formats-build/bioformats/components/bundles/bioformats_package/build/unzip
#17 36.02 [unzip] Expanding: /home/build/.m2/repository/org/openmicroscopy/ome-mdbtools/5.3.5-SNAPSHOT/ome-mdbtools-5.3.5-SNAPSHOT.jar into /bio-formats-build/bioformats/components/bundles/bioformats_package/build/unzip
#17 36.03 [unzip] Expanding: /home/build/.m2/repository/org/openmicroscopy/metakit/5.3.10-SNAPSHOT/metakit-5.3.10-SNAPSHOT.jar into /bio-formats-build/bioformats/components/bundles/bioformats_package/build/unzip
#17 36.03 [unzip] Expanding: /home/build/.m2/repository/org/openmicroscopy/ome-poi/5.3.11-SNAPSHOT/ome-poi-5.3.11-SNAPSHOT.jar into /bio-formats-build/bioformats/components/bundles/bioformats_package/build/unzip
#17 36.14 [unzip] Expanding: /home/build/.m2/repository/commons-logging/commons-logging/1.2/commons-logging-1.2.jar into /bio-formats-build/bioformats/components/bundles/bioformats_package/build/unzip
#17 36.15 [unzip] Expanding: /home/build/.m2/repository/edu/ucar/cdm-core/5.6.0/cdm-core-5.6.0.jar into /bio-formats-build/bioformats/components/bundles/bioformats_package/build/unzip
#17 36.55 [unzip] Expanding: /home/build/.m2/repository/edu/ucar/httpservices/5.6.0/httpservices-5.6.0.jar into /bio-formats-build/bioformats/components/bundles/bioformats_package/build/unzip
#17 36.56 [unzip] Expanding: /home/build/.m2/repository/org/apache/httpcomponents/httpclient/4.5.13/httpclient-4.5.13.jar into /bio-formats-build/bioformats/components/bundles/bioformats_package/build/unzip
#17 36.66 [unzip] Expanding: /home/build/.m2/repository/commons-codec/commons-codec/1.11/commons-codec-1.11.jar into /bio-formats-build/bioformats/components/bundles/bioformats_package/build/unzip
#17 36.70 [unzip] Expanding: /home/build/.m2/repository/org/apache/httpcomponents/httpmime/4.5.13/httpmime-4.5.13.jar into /bio-formats-build/bioformats/components/bundles/bioformats_package/build/unzip
#17 36.71 [unzip] Expanding: /home/build/.m2/repository/com/google/re2j/re2j/1.3/re2j-1.3.jar into /bio-formats-build/bioformats/components/bundles/bioformats_package/build/unzip
#17 36.72 [unzip] Expanding: /home/build/.m2/repository/commons-math/commons-math/1.2/commons-math-1.2.jar into /bio-formats-build/bioformats/components/bundles/bioformats_package/build/unzip
#17 36.77 [unzip] Expanding: /home/build/.m2/repository/io/airlift/aircompressor/0.27/aircompressor-0.27.jar into /bio-formats-build/bioformats/components/bundles/bioformats_package/build/unzip
#17 36.80 [unzip] Expanding: /home/build/.m2/repository/org/xerial/sqlite-jdbc/3.49.1.0/sqlite-jdbc-3.49.1.0.jar into /bio-formats-build/bioformats/components/bundles/bioformats_package/build/unzip
#17 37.12 [unzip] Expanding: /home/build/.m2/repository/com/jgoodies/jgoodies-forms/1.7.2/jgoodies-forms-1.7.2.jar into /bio-formats-build/bioformats/components/bundles/bioformats_package/build/unzip
#17 37.13 [unzip] Expanding: /home/build/.m2/repository/com/jgoodies/jgoodies-common/1.7.0/jgoodies-common-1.7.0.jar into /bio-formats-build/bioformats/components/bundles/bioformats_package/build/unzip
#17 37.14 [unzip] Expanding: /home/build/.m2/repository/org/slf4j/slf4j-api/2.0.9/slf4j-api-2.0.9.jar into /bio-formats-build/bioformats/components/bundles/bioformats_package/build/unzip
#17 37.15 [unzip] Expanding: /home/build/.m2/repository/ome/bio-formats-tools/8.4.0-SNAPSHOT/bio-formats-tools-8.4.0-SNAPSHOT.jar into /bio-formats-build/bioformats/components/bundles/bioformats_package/build/unzip
#17 37.15 [unzip] Expanding: /home/build/.m2/repository/xalan/serializer/2.7.3/serializer-2.7.3.jar into /bio-formats-build/bioformats/components/bundles/bioformats_package/build/unzip
#17 37.18 [unzip] Expanding: /home/build/.m2/repository/xalan/xalan/2.7.3/xalan-2.7.3.jar into /bio-formats-build/bioformats/components/bundles/bioformats_package/build/unzip
#17 37.51 [unzip] Expanding: /home/build/.m2/repository/ch/qos/logback/logback-core/1.3.16/logback-core-1.3.16.jar into /bio-formats-build/bioformats/components/bundles/bioformats_package/build/unzip
#17 37.60 [unzip] Expanding: /home/build/.m2/repository/ch/qos/logback/logback-classic/1.3.16/logback-classic-1.3.16.jar into /bio-formats-build/bioformats/components/bundles/bioformats_package/build/unzip
#17 37.97 [jar] Building jar: /bio-formats-build/bioformats/artifacts/bioformats_package.jar
#17 44.57 [delete] Deleting directory /bio-formats-build/bioformats/components/bundles/bioformats_package/build/unzip
#17 45.15 [resolver:install] Using default POM (ome:bioformats_package:8.4.0-SNAPSHOT)
#17 45.16 [resolver:install] Installing /bio-formats-build/bioformats/components/bundles/bioformats_package/pom.xml to /home/build/.m2/repository/ome/bioformats_package/8.4.0-SNAPSHOT/bioformats_package-8.4.0-SNAPSHOT.pom
#17 45.17 [resolver:install] Installing /bio-formats-build/bioformats/artifacts/bioformats_package.jar to /home/build/.m2/repository/ome/bioformats_package/8.4.0-SNAPSHOT/bioformats_package-8.4.0-SNAPSHOT.jar
#17 45.20 [resolver:install] Installing ome:bioformats_package:8.4.0-SNAPSHOT/maven-metadata.xml to /home/build/.m2/repository/ome/bioformats_package/8.4.0-SNAPSHOT/maven-metadata-local.xml
#17 45.21 [resolver:install] Installing ome:bioformats_package/maven-metadata.xml to /home/build/.m2/repository/ome/bioformats_package/maven-metadata-local.xml
#17 45.21
#17 45.21 BUILD SUCCESSFUL
#17 45.21 Total time: 44 seconds
#17 DONE 48.2s
#18 [14/14] WORKDIR /bio-formats-build/bioformats/components/test-suite
#18 DONE 0.0s
#19 exporting to image
#19 exporting layers
#19 exporting layers 3.2s done
#19 writing image sha256:beaf69f5fe5e35a98e04860e7cc63428a9686d323d5dcb7b1c5e659430801f2c done
#19 naming to docker.io/snoopycrimecop/bioformats:merge_ci done
#19 DONE 3.3s
Finished: SUCCESS
