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Started by upstream project "BIOFORMATS-test-repo" build number 297 originally caused by: Started by upstream project "Trigger" build number 319 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@5 [BIOFORMATS-test-folder@5] $ /bin/bash -xe /tmp/jenkins9131868026862007602.sh + '[' specs = slidebook ']' ++ date +%u + '[' 2 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_46930_merge_ci -v /uod/idr/repos/curated/specs:/data -v /uod/idr-scratch/merge-ci/curated/specs:/config snoopycrimecop/bioformats:merge_ci -Dtestng.memory=15g -Dtestng.threadCount=12 Buildfile: /bio-formats-build/bioformats/components/test-suite/build.xml [echo] isSnapshot = true init-title: [echo] ----------=========== bio-formats-testing-framework ===========---------- init-timestamp: init: copy-resources: compile: [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-mdbtools/5.3.4-SNAPSHOT/maven-metadata.xml [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/metakit/5.3.8-SNAPSHOT/maven-metadata.xml [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-poi/5.3.10-SNAPSHOT/maven-metadata.xml [resolver:resolve] Resolving artifacts [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-mdbtools/5.3.4-SNAPSHOT/maven-metadata.xml [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/metakit/5.3.8-SNAPSHOT/maven-metadata.xml [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-poi/5.3.10-SNAPSHOT/maven-metadata.xml compile-tests: [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-mdbtools/5.3.4-SNAPSHOT/maven-metadata.xml [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/metakit/5.3.8-SNAPSHOT/maven-metadata.xml [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-poi/5.3.10-SNAPSHOT/maven-metadata.xml [resolver:resolve] Resolving artifacts [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-mdbtools/5.3.4-SNAPSHOT/maven-metadata.xml [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/metakit/5.3.8-SNAPSHOT/maven-metadata.xml [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-poi/5.3.10-SNAPSHOT/maven-metadata.xml [javac] Compiling 1 source file to /bio-formats-build/bioformats/components/test-suite/test test-automated: [testng] File leak detector installed [testng] 00:17:48,059 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 00:17:48,060 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 00:17:48,060 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:17:48,061 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:17:48,061 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 00:17:48,061 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 00:17:48,062 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 00:17:48,062 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:17:48,062 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:17:48,062 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 00:17:48,062 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 00:17:48,062 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 00:17:48,272 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 00:17:48,272 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 00:17:48,297 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 00:17:48,297 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 00:17:48,304 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 00:17:48,305 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 00:17:48,305 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 00:17:48,305 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 00:17:48,305 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 00:17:48,306 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 00:17:48,306 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 244 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-12-24 00:17:48,315] [main] java.version = 1.8.0_342 [testng] 00:17:48,319 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 00:17:48,319 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:17:48,361 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-24_00-17-48.log] [testng] 00:17:48,362 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2024-12-24 00:17:48,364] [main] testng.directory = /data [testng] [2024-12-24 00:17:48,364] [main] testng.configDirectory = /config [testng] [2024-12-24 00:17:48,376] [main] testng.multiplier = 1.0 [testng] [2024-12-24 00:17:48,376] [main] testng.in-memory = false [testng] [2024-12-24 00:17:48,376] [main] testng.allow-missing = false [testng] [2024-12-24 00:17:48,376] [main] user.language = en [testng] [2024-12-24 00:17:48,376] [main] user.country = ${user.country} [testng] [2024-12-24 00:17:48,376] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-12-24 00:22:17,678] [main] ---------------------------------------- [testng] [2024-12-24 00:22:17,679] [main] Total files: 226 [testng] [2024-12-24 00:22:17,679] [main] Scan time: 269.302 s (1191 ms/file) [testng] [2024-12-24 00:22:17,679] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 28 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-12-24 00:25:13,332] [pool-1-thread-1] Initializing /data/iplab/Blend_DIC.IPL: [testng] 00:25:13,333 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 00:25:13,334 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:25:13,335 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-24_00-25-13.log] [testng] 00:25:13,335 |-INFO in ch.qos.logback.core.sift.SiftProcessor@441f5876 - End of configuration. [testng] [2024-12-24 00:25:13,390] [pool-1-thread-12] Initializing /data/iplab/Color Histology.IPL: [testng] 00:25:13,391 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 00:25:13,391 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:25:13,391 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-24_00-25-13.log] [testng] 00:25:13,392 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3d75b4b4 - End of configuration. [testng] [2024-12-24 00:25:13,427] [pool-1-thread-11] Initializing /data/iplab/Color Image.IPL: [testng] 00:25:13,428 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 00:25:13,428 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:25:13,429 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-24_00-25-13.log] [testng] 00:25:13,429 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4aaa1996 - End of configuration. [testng] [2024-12-24 00:25:13,473] [pool-1-thread-10] Initializing /data/fluoview/SpineAnimation.tif: [testng] 00:25:13,473 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 00:25:13,473 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:25:13,473 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-24_00-25-13.log] [testng] 00:25:13,474 |-INFO in ch.qos.logback.core.sift.SiftProcessor@38ab19f8 - End of configuration. [testng] [2024-12-24 00:25:13,703] [pool-1-thread-9] Initializing /data/fluoview/sample_labled_XYZTCh.tif: [testng] 00:25:13,703 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 00:25:13,703 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:25:13,704 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-24_00-25-13.log] [testng] 00:25:13,705 |-INFO in ch.qos.logback.core.sift.SiftProcessor@360e4396 - End of configuration. [testng] [2024-12-24 00:25:13,915] [pool-1-thread-8] Initializing /data/fluoview/SpineAnimation.avi: [testng] 00:25:13,915 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 00:25:13,915 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:25:13,915 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-24_00-25-13.log] [testng] 00:25:13,916 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7489df23 - End of configuration. [testng] [2024-12-24 00:25:14,000] [pool-1-thread-7] Initializing /data/iplab/Actin.IPL: [testng] 00:25:14,000 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 00:25:14,000 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:25:14,001 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-24_00-25-14.log] [testng] 00:25:14,002 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4795a84f - End of configuration. [testng] [2024-12-24 00:25:14,038] [pool-1-thread-6] Initializing /data/fluoview/Sample_ThreeCH.TIF: [testng] 00:25:14,039 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 00:25:14,039 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:25:14,039 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-24_00-25-14.log] [testng] 00:25:14,039 |-INFO in ch.qos.logback.core.sift.SiftProcessor@202a8051 - End of configuration. [testng] [2024-12-24 00:25:14,239] [pool-1-thread-5] Initializing /data/fluoview/sample_labled_XYZCh.tif: [testng] 00:25:14,239 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 00:25:14,239 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:25:14,240 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-24_00-25-14.log] [testng] 00:25:14,240 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21395e09 - End of configuration. [testng] [2024-12-24 00:25:14,435] [pool-1-thread-4] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test.dm3: [testng] 00:25:14,435 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 00:25:14,435 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:25:14,436 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-24_00-25-14.log] [testng] 00:25:14,436 |-INFO in ch.qos.logback.core.sift.SiftProcessor@116202ea - End of configuration. [testng] [2024-12-24 00:25:14,516] [pool-1-thread-3] Initializing /data/fluoview/Sample_TwoCH.TIF: [testng] 00:25:14,516 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 00:25:14,516 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:25:14,517 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-24_00-25-14.log] [testng] 00:25:14,517 |-INFO in ch.qos.logback.core.sift.SiftProcessor@89ce3c8 - End of configuration. [testng] [2024-12-24 00:25:14,716] [pool-1-thread-2] Initializing /data/iplab/Chromosomes.IPL: [testng] 00:25:14,716 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 00:25:14,716 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:25:14,717 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-24_00-25-14.log] [testng] 00:25:14,717 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3f6c66fb - End of configuration. [testng] [2024-12-24 00:25:16,904] [pool-1-thread-7] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-1.lsm: [testng] [2024-12-24 00:25:17,123] [pool-1-thread-11] Initializing /data/iplab/Blend_Final.IPL: [testng] [2024-12-24 00:25:17,156] [pool-1-thread-12] Initializing /data/iplab/3t3 Cell.IPL: [testng] [2024-12-24 00:25:17,188] [pool-1-thread-2] Initializing /data/fluoview/Sample_XT.tif: [testng] [2024-12-24 00:25:17,541] [pool-1-thread-4] Initializing /data/fluoview/sample_labled_XYTCh.tif: [testng] [2024-12-24 00:25:17,905] [pool-1-thread-1] Initializing /data/iplab/Blend_Dapi.IPL: [testng] [2024-12-24 00:25:17,967] [pool-1-thread-8] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-2.lsm: [testng] [2024-12-24 00:25:19,864] [pool-1-thread-12] Initializing /data/iplab/Blend_Fitc.IPL: [testng] [2024-12-24 00:25:20,032] [pool-1-thread-11] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile--MultiTrack-1.lsm: [testng] [2024-12-24 00:25:20,751] [pool-1-thread-1] Initializing /data/fluoview/Sample_XYT.TIF: [testng] [2024-12-24 00:25:21,278] [pool-1-thread-5] Initializing /data/iplab/Blend_Tritc.IPL: [testng] [2024-12-24 00:25:21,333] [pool-1-thread-6] Initializing /data/iplab/16Bit XRay.IPL: [testng] [2024-12-24 00:25:21,390] [pool-1-thread-10] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/test3.dm3: [testng] [2024-12-24 00:25:21,464] [pool-1-thread-9] Initializing /data/fluoview/Sample_XYZ.TIF: [testng] [2024-12-24 00:25:21,779] [pool-1-thread-3] Initializing /data/iplab/10x Blood and Bacteria.IPL: [testng] [2024-12-24 00:25:22,579] [pool-1-thread-12] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test2.dm3: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1484, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 7 minutes 49 seconds Finished: SUCCESS