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Started by upstream project "BIOFORMATS-test-repo" build number 268 originally caused by: Started by upstream project "Trigger" build number 291 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/jenkins16586071197282237444.sh + '[' specs = slidebook ']' ++ date +%u + '[' 2 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_42295_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 [javac] warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] 1 warning test-automated: [testng] WARNING: An illegal reflective access operation has occurred [testng] WARNING: Illegal reflective access by org.kohsuke.file_leak_detector.Listener (file:/home/build/.m2/repository/org/kohsuke/file-leak-detector/1.18/file-leak-detector-1.18-jar-with-dependencies.jar) to field java.net.SocketImpl.socket [testng] WARNING: Please consider reporting this to the maintainers of org.kohsuke.file_leak_detector.Listener [testng] WARNING: Use --illegal-access=warn to enable warnings of further illegal reflective access operations [testng] WARNING: All illegal access operations will be denied in a future release [testng] File leak detector installed [testng] 00:51:27,334 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 00:51:27,336 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - No custom configurators were discovered as a service. [testng] 00:51:27,336 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:51:27,337 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:51:27,337 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 00:51:27,338 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 00:51:27,338 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 00:51:27,338 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:51:27,338 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:51:27,339 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 00:51:27,339 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 00:51:27,339 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 00:51:27,503 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 00:51:27,504 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 00:51:27,526 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 00:51:27,526 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 00:51:27,532 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 00:51:27,532 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 00:51:27,532 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 00:51:27,532 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 00:51:27,532 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@45099dd3 - End of configuration. [testng] 00:51:27,533 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@60099951 - Registering current configuration as safe fallback point [testng] 00:51:27,533 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 195 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-11-26 00:51:27,542] [main] java.version = 11.0.16 [testng] 00:51:27,545 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 00:51:27,545 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:51:27,587 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-26_00-51-27.log] [testng] 00:51:27,589 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21be3395 - End of configuration. [testng] [2024-11-26 00:51:27,591] [main] testng.directory = /data [testng] [2024-11-26 00:51:27,591] [main] testng.configDirectory = /config [testng] [2024-11-26 00:51:27,601] [main] testng.multiplier = 1.0 [testng] [2024-11-26 00:51:27,602] [main] testng.in-memory = false [testng] [2024-11-26 00:51:27,602] [main] testng.allow-missing = false [testng] [2024-11-26 00:51:27,602] [main] user.language = en [testng] [2024-11-26 00:51:27,602] [main] user.country = ${user.country} [testng] [2024-11-26 00:51:27,602] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-11-26 01:24:14,194] [main] ---------------------------------------- [testng] [2024-11-26 01:24:14,194] [main] Total files: 226 [testng] [2024-11-26 01:24:14,194] [main] Scan time: 1966.592 s (8701 ms/file) [testng] [2024-11-26 01:24:14,194] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 28 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-11-26 02:13:44,855] [pool-1-thread-1] Initializing /data/fluoview/Sample_XT.tif: [testng] 02:13:44,855 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:13:44,856 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:13:44,857 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-11-26_02-13-44.log] [testng] 02:13:44,858 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4235a78a - End of configuration. [testng] [2024-11-26 02:13:49,521] [pool-1-thread-12] Initializing /data/iplab/Blend_DIC.IPL: [testng] 02:13:49,521 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:13:49,521 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:13:49,523 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-11-26_02-13-49.log] [testng] 02:13:49,523 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6273f06a - End of configuration. [testng] [2024-11-26 02:13:50,082] [pool-1-thread-11] Initializing /data/iplab/Color Histology.IPL: [testng] 02:13:50,083 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:13:50,083 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:13:50,083 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-11-26_02-13-50.log] [testng] 02:13:50,084 |-INFO in ch.qos.logback.core.sift.SiftProcessor@78ee61ab - End of configuration. [testng] [2024-11-26 02:13:50,640] [pool-1-thread-10] Initializing /data/iplab/Color Image.IPL: [testng] 02:13:50,640 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:13:50,640 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:13:50,641 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-11-26_02-13-50.log] [testng] 02:13:50,641 |-INFO in ch.qos.logback.core.sift.SiftProcessor@397ab3eb - End of configuration. [testng] [2024-11-26 02:13:51,396] [pool-1-thread-9] Initializing /data/iplab/Chromosomes.IPL: [testng] 02:13:51,396 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:13:51,396 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:13:51,397 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-11-26_02-13-51.log] [testng] 02:13:51,397 |-INFO in ch.qos.logback.core.sift.SiftProcessor@44b7b736 - End of configuration. [testng] [2024-11-26 02:13:52,411] [pool-1-thread-8] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test2.dm3: [testng] 02:13:52,411 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:13:52,411 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:13:52,412 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-11-26_02-13-52.log] [testng] 02:13:52,412 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3e8584b3 - End of configuration. [testng] [2024-11-26 02:13:53,790] [pool-1-thread-7] Initializing /data/fluoview/sample_labled_XYZTCh.tif: [testng] 02:13:53,791 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:13:53,791 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:13:53,791 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-11-26_02-13-53.log] [testng] 02:13:53,792 |-INFO in ch.qos.logback.core.sift.SiftProcessor@612dbea7 - End of configuration. [testng] [2024-11-26 02:13:59,368] [pool-1-thread-6] Initializing /data/iplab/16Bit XRay.IPL: [testng] 02:13:59,368 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:13:59,368 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:13:59,369 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-11-26_02-13-59.log] [testng] 02:13:59,369 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5e943307 - End of configuration. [testng] [2024-11-26 02:14:00,523] [pool-1-thread-5] Initializing /data/iplab/Blend_Fitc.IPL: [testng] 02:14:00,523 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:14:00,523 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:14:00,524 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-11-26_02-14-00.log] [testng] 02:14:00,524 |-INFO in ch.qos.logback.core.sift.SiftProcessor@401df70b - End of configuration. [testng] [2024-11-26 02:14:01,684] [pool-1-thread-4] Initializing /data/fluoview/SpineAnimation.tif: [testng] 02:14:01,684 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:14:01,684 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:14:01,685 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-11-26_02-14-01.log] [testng] 02:14:01,700 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36ab2a2a - End of configuration. [testng] [2024-11-26 02:14:05,801] [pool-1-thread-3] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile--MultiTrack-1.lsm: [testng] 02:14:05,801 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:14:05,801 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:14:05,802 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-11-26_02-14-05.log] [testng] 02:14:05,802 |-INFO in ch.qos.logback.core.sift.SiftProcessor@44191698 - End of configuration. [testng] [2024-11-26 02:14:10,291] [pool-1-thread-2] Initializing /data/iplab/Blend_Tritc.IPL: [testng] 02:14:10,291 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:14:10,291 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:14:10,292 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-11-26_02-14-10.log] [testng] 02:14:10,292 |-INFO in ch.qos.logback.core.sift.SiftProcessor@58ea9c89 - End of configuration. [testng] [2024-11-26 02:14:22,489] [pool-1-thread-2] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/test3.dm3: [testng] [2024-11-26 02:14:23,636] [pool-1-thread-12] Initializing /data/fluoview/Sample_TwoCH.TIF: [testng] [2024-11-26 02:14:28,673] [pool-1-thread-5] Initializing /data/fluoview/Sample_XYZ.TIF: [testng] [2024-11-26 02:14:33,208] [pool-1-thread-6] Initializing /data/iplab/Blend_Final.IPL: [testng] [2024-11-26 02:14:33,456] [pool-1-thread-9] Initializing /data/fluoview/sample_labled_XYTCh.tif: [testng] [2024-11-26 02:14:38,461] [pool-1-thread-11] Initializing /data/iplab/3t3 Cell.IPL: [testng] [2024-11-26 02:14:39,100] [pool-1-thread-10] Initializing /data/fluoview/Sample_XYT.TIF: [testng] [2024-11-26 02:14:43,817] [pool-1-thread-8] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-1.lsm: [testng] [2024-11-26 02:14:58,500] [pool-1-thread-11] Initializing /data/fluoview/Sample_ThreeCH.TIF: [testng] [2024-11-26 02:15:03,812] [pool-1-thread-6] Initializing /data/fluoview/SpineAnimation.avi: [testng] [2024-11-26 02:15:05,814] [pool-1-thread-2] Initializing /data/fluoview/sample_labled_XYZCh.tif: [testng] [2024-11-26 02:15:14,586] [pool-1-thread-7] Initializing /data/iplab/Blend_Dapi.IPL: [testng] [2024-11-26 02:15:17,684] [pool-1-thread-4] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-2.lsm: [testng] [2024-11-26 02:15:21,825] [pool-1-thread-1] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test.dm3: [testng] [2024-11-26 02:15:24,722] [pool-1-thread-6] Initializing /data/iplab/Actin.IPL: [testng] [2024-11-26 02:15:28,270] [pool-1-thread-7] Initializing /data/iplab/10x Blood and Bacteria.IPL: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1484, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 85 minutes 1 second Finished: SUCCESS