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Started by upstream project "BIOFORMATS-test-repo" build number 241 originally caused by: Started by upstream project "Trigger" build number 266 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@2 [BIOFORMATS-test-folder@2] $ /bin/bash -xe /tmp/jenkins15370028451928059462.sh + '[' specs = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_37867_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] Resolving artifacts compile-tests: [resolver:resolve] Resolving artifacts [javac] Compiling 1 source file to /bio-formats-build/bioformats/components/test-suite/test test-automated: [testng] File leak detector installed [testng] 00:29:41,371 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 00:29:41,372 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 00:29:41,373 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:29:41,374 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:29:41,374 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 00:29:41,374 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 00:29:41,374 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 0 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 00:29:41,374 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:29:41,375 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:29:41,375 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 00:29:41,375 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 00:29:41,375 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 00:29:41,619 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 00:29:41,620 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 00:29:41,650 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 00:29:41,650 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 00:29:41,658 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 00:29:41,659 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 00:29:41,659 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 00:29:41,659 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 00:29:41,659 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 00:29:41,660 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 00:29:41,660 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 285 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-11-01 00:29:41,672] [main] java.version = 1.8.0_342 [testng] 00:29:41,676 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 00:29:41,676 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:41,724 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-01_00-29-41.log] [testng] 00:29:41,726 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2024-11-01 00:29:41,728] [main] testng.directory = /data [testng] [2024-11-01 00:29:41,728] [main] testng.configDirectory = /config [testng] [2024-11-01 00:29:41,741] [main] testng.multiplier = 1.0 [testng] [2024-11-01 00:29:41,741] [main] testng.in-memory = false [testng] [2024-11-01 00:29:41,741] [main] testng.allow-missing = false [testng] [2024-11-01 00:29:41,741] [main] user.language = en [testng] [2024-11-01 00:29:41,741] [main] user.country = ${user.country} [testng] [2024-11-01 00:29:41,741] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-11-01 00:32:06,459] [main] ---------------------------------------- [testng] [2024-11-01 00:32:06,459] [main] Total files: 226 [testng] [2024-11-01 00:32:06,459] [main] Scan time: 144.718 s (640 ms/file) [testng] [2024-11-01 00:32:06,459] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 28 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-11-01 00:33:31,024] [pool-1-thread-1] Initializing /data/iplab/Blend_Fitc.IPL: [testng] 00:33:31,024 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 00:33:31,025 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:33:31,026 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-11-01_00-33-31.log] [testng] 00:33:31,026 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6bafdf66 - End of configuration. [testng] [2024-11-01 00:33:31,076] [pool-1-thread-12] Initializing /data/fluoview/sample_labled_XYZTCh.tif: [testng] 00:33:31,076 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 00:33:31,077 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:33:31,077 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-11-01_00-33-31.log] [testng] 00:33:31,078 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1b85d541 - End of configuration. [testng] [2024-11-01 00:33:31,267] [pool-1-thread-11] Initializing /data/fluoview/Sample_XT.tif: [testng] 00:33:31,268 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 00:33:31,268 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:33:31,269 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-11-01_00-33-31.log] [testng] 00:33:31,269 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1df5367c - End of configuration. [testng] [2024-11-01 00:33:31,457] [pool-1-thread-10] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/test3.dm3: [testng] 00:33:31,457 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 00:33:31,457 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:33:31,458 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-11-01_00-33-31.log] [testng] 00:33:31,459 |-INFO in ch.qos.logback.core.sift.SiftProcessor@bf9e0f9 - End of configuration. [testng] [2024-11-01 00:33:31,501] [pool-1-thread-9] Initializing /data/fluoview/Sample_ThreeCH.TIF: [testng] 00:33:31,501 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 00:33:31,501 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:33:31,502 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-11-01_00-33-31.log] [testng] 00:33:31,502 |-INFO in ch.qos.logback.core.sift.SiftProcessor@12d6ea29 - End of configuration. [testng] [2024-11-01 00:33:31,677] [pool-1-thread-8] Initializing /data/fluoview/sample_labled_XYZCh.tif: [testng] 00:33:31,677 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 00:33:31,677 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:33:31,678 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-11-01_00-33-31.log] [testng] 00:33:31,678 |-INFO in ch.qos.logback.core.sift.SiftProcessor@447a000b - End of configuration. [testng] [2024-11-01 00:33:31,858] [pool-1-thread-7] Initializing /data/iplab/Blend_Final.IPL: [testng] 00:33:31,858 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 00:33:31,858 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:33:31,859 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-11-01_00-33-31.log] [testng] 00:33:31,859 |-INFO in ch.qos.logback.core.sift.SiftProcessor@38ce2ab9 - End of configuration. [testng] [2024-11-01 00:33:31,891] [pool-1-thread-6] Initializing /data/fluoview/Sample_XYT.TIF: [testng] 00:33:31,891 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 00:33:31,891 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:33:31,892 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-11-01_00-33-31.log] [testng] 00:33:31,892 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5f629d01 - End of configuration. [testng] [2024-11-01 00:33:32,076] [pool-1-thread-5] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test2.dm3: [testng] 00:33:32,076 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 00:33:32,076 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:33:32,077 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-11-01_00-33-32.log] [testng] 00:33:32,078 |-INFO in ch.qos.logback.core.sift.SiftProcessor@166f735b - End of configuration. [testng] [2024-11-01 00:33:32,110] [pool-1-thread-4] Initializing /data/iplab/10x Blood and Bacteria.IPL: [testng] 00:33:32,110 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 00:33:32,110 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:33:32,111 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-11-01_00-33-32.log] [testng] 00:33:32,111 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2a293a6 - End of configuration. [testng] [2024-11-01 00:33:32,141] [pool-1-thread-3] Initializing /data/fluoview/Sample_XYZ.TIF: [testng] 00:33:32,141 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 00:33:32,141 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:33:32,142 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-11-01_00-33-32.log] [testng] 00:33:32,143 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4ad8b4b0 - End of configuration. [testng] [2024-11-01 00:33:32,308] [pool-1-thread-2] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile--MultiTrack-1.lsm: [testng] 00:33:32,308 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 00:33:32,308 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:33:32,309 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-11-01_00-33-32.log] [testng] 00:33:32,310 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4678bb8a - End of configuration. [testng] [2024-11-01 00:33:34,734] [pool-1-thread-1] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-2.lsm: [testng] [2024-11-01 00:33:34,871] [pool-1-thread-7] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test.dm3: [testng] [2024-11-01 00:33:34,898] [pool-1-thread-10] Initializing /data/iplab/Blend_Tritc.IPL: [testng] [2024-11-01 00:33:34,922] [pool-1-thread-5] Initializing /data/fluoview/Sample_TwoCH.TIF: [testng] [2024-11-01 00:33:35,111] [pool-1-thread-4] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-1.lsm: [testng] [2024-11-01 00:33:35,465] [pool-1-thread-12] Initializing /data/fluoview/SpineAnimation.avi: [testng] [2024-11-01 00:33:35,622] [pool-1-thread-6] Initializing /data/iplab/Chromosomes.IPL: [testng] [2024-11-01 00:33:35,772] [pool-1-thread-3] Initializing /data/iplab/Blend_Dapi.IPL: [testng] [2024-11-01 00:33:35,891] [pool-1-thread-8] Initializing /data/iplab/Color Histology.IPL: [testng] [2024-11-01 00:33:36,122] [pool-1-thread-9] Initializing /data/fluoview/SpineAnimation.tif: [testng] [2024-11-01 00:33:36,780] [pool-1-thread-11] Initializing /data/iplab/Actin.IPL: [testng] [2024-11-01 00:33:37,212] [pool-1-thread-8] Initializing /data/fluoview/sample_labled_XYTCh.tif: [testng] [2024-11-01 00:33:37,433] [pool-1-thread-6] Initializing /data/iplab/Blend_DIC.IPL: [testng] [2024-11-01 00:33:37,474] [pool-1-thread-7] Initializing /data/iplab/3t3 Cell.IPL: [testng] [2024-11-01 00:33:37,507] [pool-1-thread-10] Initializing /data/iplab/Color Image.IPL: [testng] [2024-11-01 00:33:37,560] [pool-1-thread-3] Initializing /data/iplab/16Bit XRay.IPL: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1484, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 4 minutes 2 seconds Finished: SUCCESS