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Started by upstream project "BIOFORMATS-test-repo" build number 187 originally caused by: Started by upstream project "Trigger" build number 209 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder [BIOFORMATS-test-folder] $ /bin/bash -xe /tmp/jenkins16714316837672358797.sh + '[' specs = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_29527_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] 01:40:29,331 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 01:40:29,333 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service. [testng] 01:40:29,333 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:40:29,335 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:40:29,335 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:40:29,335 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:40:29,336 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 01:40:29,336 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:40:29,336 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:40:29,337 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:40:29,337 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:40:29,337 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:40:29,571 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:40:29,571 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:40:29,600 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:40:29,601 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:40:29,609 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:40:29,609 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:40:29,609 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:40:29,610 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:40:29,610 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 01:40:29,611 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 01:40:29,611 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 275 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-09-13 01:40:29,621] [main] java.version = 1.8.0_342 [testng] 01:40:29,624 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:40:29,624 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:40:29,670 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-09-13_01-40-29.log] [testng] 01:40:29,672 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-09-13 01:40:29,674] [main] testng.directory = /data [testng] [2024-09-13 01:40:29,674] [main] testng.configDirectory = /config [testng] [2024-09-13 01:40:29,686] [main] testng.multiplier = 1.0 [testng] [2024-09-13 01:40:29,686] [main] testng.in-memory = false [testng] [2024-09-13 01:40:29,686] [main] testng.allow-missing = false [testng] [2024-09-13 01:40:29,686] [main] user.language = en [testng] [2024-09-13 01:40:29,686] [main] user.country = ${user.country} [testng] [2024-09-13 01:40:29,686] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-09-13 01:40:57,550] [main] ---------------------------------------- [testng] [2024-09-13 01:40:57,550] [main] Total files: 226 [testng] [2024-09-13 01:40:57,550] [main] Scan time: 27.863 s (123 ms/file) [testng] [2024-09-13 01:40:57,551] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 28 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-09-13 01:41:12,607] [pool-1-thread-1] Initializing /data/fluoview/SpineAnimation.avi: [testng] 01:41:12,607 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:41:12,607 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:41:12,609 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-09-13_01-41-12.log] [testng] 01:41:12,609 |-INFO in ch.qos.logback.core.sift.SiftProcessor@253fb025 - End of configuration. [testng] [2024-09-13 01:41:12,648] [pool-1-thread-12] Initializing /data/iplab/Color Image.IPL: [testng] 01:41:12,648 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:41:12,648 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:41:12,650 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-09-13_01-41-12.log] [testng] 01:41:12,650 |-INFO in ch.qos.logback.core.sift.SiftProcessor@38a3da3d - End of configuration. [testng] [2024-09-13 01:41:12,667] [pool-1-thread-11] Initializing /data/fluoview/Sample_XYT.TIF: [testng] 01:41:12,668 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:41:12,668 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:41:12,669 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-09-13_01-41-12.log] [testng] 01:41:12,669 |-INFO in ch.qos.logback.core.sift.SiftProcessor@62ea3b46 - End of configuration. [testng] [2024-09-13 01:41:12,755] [pool-1-thread-10] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/test3.dm3: [testng] 01:41:12,755 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:41:12,755 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:41:12,756 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-09-13_01-41-12.log] [testng] 01:41:12,757 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3979352 - End of configuration. [testng] [2024-09-13 01:41:12,769] [pool-1-thread-9] Initializing /data/fluoview/SpineAnimation.tif: [testng] 01:41:12,769 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:41:12,769 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:41:12,770 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-09-13_01-41-12.log] [testng] 01:41:12,771 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3040ed2d - End of configuration. [testng] [2024-09-13 01:41:12,827] [pool-1-thread-8] Initializing /data/iplab/Blend_Fitc.IPL: [testng] 01:41:12,827 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:41:12,827 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:41:12,828 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-09-13_01-41-12.log] [testng] 01:41:12,828 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3f67181a - End of configuration. [testng] [2024-09-13 01:41:12,848] [pool-1-thread-7] Initializing /data/iplab/3t3 Cell.IPL: [testng] 01:41:12,848 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:41:12,848 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:41:12,856 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-09-13_01-41-12.log] [testng] 01:41:12,857 |-INFO in ch.qos.logback.core.sift.SiftProcessor@18fd55db - End of configuration. [testng] [2024-09-13 01:41:12,898] [pool-1-thread-6] Initializing /data/iplab/Color Histology.IPL: [testng] 01:41:12,899 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:41:12,899 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:41:12,900 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-09-13_01-41-12.log] [testng] 01:41:12,900 |-INFO in ch.qos.logback.core.sift.SiftProcessor@a5a30f1 - End of configuration. [testng] [2024-09-13 01:41:12,935] [pool-1-thread-5] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile--MultiTrack-1.lsm: [testng] 01:41:12,935 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:41:12,935 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:41:12,937 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-09-13_01-41-12.log] [testng] 01:41:12,938 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5456e28f - End of configuration. [testng] [2024-09-13 01:41:13,181] [pool-1-thread-4] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test2.dm3: [testng] 01:41:13,181 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:41:13,181 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:41:13,182 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-09-13_01-41-13.log] [testng] 01:41:13,183 |-INFO in ch.qos.logback.core.sift.SiftProcessor@238e95e4 - End of configuration. [testng] [2024-09-13 01:41:13,215] [pool-1-thread-3] Initializing /data/iplab/Actin.IPL: [testng] 01:41:13,215 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:41:13,215 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:41:13,216 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-09-13_01-41-13.log] [testng] 01:41:13,216 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2422e094 - End of configuration. [testng] [2024-09-13 01:41:13,243] [pool-1-thread-2] Initializing /data/fluoview/sample_labled_XYTCh.tif: [testng] 01:41:13,243 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:41:13,243 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:41:13,244 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-09-13_01-41-13.log] [testng] 01:41:13,244 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3895890b - End of configuration. [testng] [2024-09-13 01:41:15,361] [pool-1-thread-6] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test.dm3: [testng] [2024-09-13 01:41:15,376] [pool-1-thread-12] Initializing /data/fluoview/sample_labled_XYZTCh.tif: [testng] [2024-09-13 01:41:15,444] [pool-1-thread-3] Initializing /data/iplab/Blend_Dapi.IPL: [testng] [2024-09-13 01:41:15,456] [pool-1-thread-7] Initializing /data/fluoview/Sample_XYZ.TIF: [testng] [2024-09-13 01:41:15,529] [pool-1-thread-10] Initializing /data/fluoview/Sample_ThreeCH.TIF: [testng] [2024-09-13 01:41:15,628] [pool-1-thread-4] Initializing /data/iplab/Blend_DIC.IPL: [testng] [2024-09-13 01:41:15,646] [pool-1-thread-1] Initializing /data/iplab/Chromosomes.IPL: [testng] [2024-09-13 01:41:15,656] [pool-1-thread-2] Initializing /data/iplab/10x Blood and Bacteria.IPL: [testng] [2024-09-13 01:41:15,694] [pool-1-thread-8] Initializing /data/iplab/Blend_Tritc.IPL: [testng] [2024-09-13 01:41:15,737] [pool-1-thread-11] Initializing /data/iplab/16Bit XRay.IPL: [testng] [2024-09-13 01:41:15,782] [pool-1-thread-9] Initializing /data/fluoview/Sample_TwoCH.TIF: [testng] [2024-09-13 01:41:16,777] [pool-1-thread-11] Initializing /data/fluoview/sample_labled_XYZCh.tif: [testng] [2024-09-13 01:41:16,871] [pool-1-thread-1] Initializing /data/iplab/Blend_Final.IPL: [testng] [2024-09-13 01:41:16,907] [pool-1-thread-6] Initializing /data/fluoview/Sample_XT.tif: [testng] [2024-09-13 01:41:17,288] [pool-1-thread-3] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-2.lsm: [testng] [2024-09-13 01:41:17,492] [pool-1-thread-2] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-1.lsm: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1484, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 55 seconds Finished: SUCCESS