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Started by upstream project "BIOFORMATS-test-repo" build number 399 originally caused by: Started by upstream project "Trigger" build number 485 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@17 [BIOFORMATS-test-folder@17] $ /bin/bash -xe /tmp/jenkins3413340738443541989.sh + '[' bruker = slidebook ']' ++ date +%u + '[' 1 -le 1 ']' + DOCKER_ARGS='-Dtestng.memory=15g -Dtestng.threadCount=12 -Duser.language=fr -Duser.country=FR' + sudo docker run --rm --name BIOFORMATS-test-folder_63097_merge_ci -v /uod/idr/repos/curated/bruker:/data -v /uod/idr-scratch/merge-ci/curated/bruker:/config snoopycrimecop/bioformats:merge_ci -Dtestng.memory=15g -Dtestng.threadCount=12 -Duser.language=fr -Duser.country=FR 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] 10:23:32,940 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15 [testng] 10:23:32,942 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - No custom configurators were discovered as a service. [testng] 10:23:32,942 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 10:23:32,943 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 10:23:32,943 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 10:23:32,943 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 10:23:32,943 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 0 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 10:23:32,943 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 10:23:32,944 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 10:23:32,944 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 10:23:32,944 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 10:23:32,944 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 10:23:33,154 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 10:23:33,154 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 10:23:33,180 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 10:23:33,180 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 10:23:33,187 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 10:23:33,187 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 10:23:33,187 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 10:23:33,188 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 10:23:33,188 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@63355449 - End of configuration. [testng] 10:23:33,188 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@48ae9b55 - Registering current configuration as safe fallback point [testng] 10:23:33,189 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 245 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-05-19 10:23:33,198] [main] java.version = 1.8.0_342 [testng] 10:23:33,201 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 10:23:33,201 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:23:33,243 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-05-19_10-23-33.log] [testng] 10:23:33,245 |-INFO in ch.qos.logback.core.sift.SiftProcessor@765d7657 - End of configuration. [testng] [2025-05-19 10:23:33,246] [main] testng.directory = /data [testng] [2025-05-19 10:23:33,247] [main] testng.configDirectory = /config [testng] [2025-05-19 10:23:33,258] [main] testng.multiplier = 1.0 [testng] [2025-05-19 10:23:33,258] [main] testng.in-memory = false [testng] [2025-05-19 10:23:33,258] [main] testng.allow-missing = false [testng] [2025-05-19 10:23:33,258] [main] user.language = fr [testng] [2025-05-19 10:23:33,259] [main] user.country = FR [testng] [2025-05-19 10:23:33,259] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2025-05-19 14:09:32,199] [main] ---------------------------------------- [testng] [2025-05-19 14:09:32,199] [main] Total files: 826 [testng] [2025-05-19 14:09:32,199] [main] Scan time: 13558.94 s (16415 ms/file) [testng] [2025-05-19 14:09:32,199] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 17 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-05-19 14:18:31,155] [pool-1-thread-1] Initializing /data/wis/tiffs/RA_060110_051_scan1_slice3.tif: [testng] 14:18:31,156 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 14:18:31,156 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:18:31,157 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-05-19_14-18-31.log] [testng] 14:18:31,157 |-INFO in ch.qos.logback.core.sift.SiftProcessor@257c9d09 - End of configuration. [testng] [2025-05-19 14:18:46,461] [pool-1-thread-12] Initializing /data/wis/tiffs/hd111104p3_sH3_scan3_slice1_echo6.tif: [testng] 14:18:46,462 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 14:18:46,462 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:18:46,463 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-05-19_14-18-46.log] [testng] 14:18:46,463 |-INFO in ch.qos.logback.core.sift.SiftProcessor@519ce60 - End of configuration. [testng] [2025-05-19 14:19:02,660] [pool-1-thread-11] Initializing /data/wis/tiffs/RAf_100110_091_Scan7_Slice9_TR6.tif: [testng] 14:19:02,660 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 14:19:02,660 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:19:02,661 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-05-19_14-19-02.log] [testng] 14:19:02,661 |-INFO in ch.qos.logback.core.sift.SiftProcessor@14a624 - End of configuration. [testng] [2025-05-19 14:19:16,868] [pool-1-thread-10] Initializing /data/wis/tiffs/RAf_100110_091_Scan8_Slice9_diff15.tif: [testng] 14:19:16,868 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 14:19:16,868 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:19:16,868 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-05-19_14-19-16.log] [testng] 14:19:16,869 |-INFO in ch.qos.logback.core.sift.SiftProcessor@72fc54a2 - End of configuration. [testng] [2025-05-19 14:19:29,608] [pool-1-thread-9] Initializing /data/wis/tiffs/hd111104p3_sH3_scan2_slice3.tif: [testng] 14:19:29,608 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 14:19:29,608 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:19:29,608 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-05-19_14-19-29.log] [testng] 14:19:29,609 |-INFO in ch.qos.logback.core.sift.SiftProcessor@fa5af6 - End of configuration. [testng] [2025-05-19 14:19:42,281] [pool-1-thread-8] Initializing /data/samples/dimension-mismatch/1/acqp: [testng] 14:19:42,281 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 14:19:42,281 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:19:42,282 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-05-19_14-19-42.log] [testng] 14:19:42,282 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2fa46b82 - End of configuration. [testng] [2025-05-19 14:20:00,910] [pool-1-thread-7] Initializing /data/wis/tiffs/hd111104p3_sH3_scan5_slice1.tif: [testng] 14:20:00,910 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 14:20:00,911 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:20:00,911 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-05-19_14-20-00.log] [testng] 14:20:00,911 |-INFO in ch.qos.logback.core.sift.SiftProcessor@11a0c0c9 - End of configuration. [testng] [2025-05-19 14:20:17,350] [pool-1-thread-6] Initializing /data/wis/tiffs/RA_060110_051_scan6_slice5.tif: [testng] 14:20:17,350 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 14:20:17,350 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:20:17,351 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-05-19_14-20-17.log] [testng] 14:20:17,351 |-INFO in ch.qos.logback.core.sift.SiftProcessor@78e92057 - End of configuration. [testng] [2025-05-19 14:20:33,608] [pool-1-thread-5] Initializing /data/wis/RA_060110.051/1/acqp: [testng] 14:20:33,608 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 14:20:33,608 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:20:33,609 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-05-19_14-20-33.log] [testng] 14:20:33,609 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1350c617 - End of configuration. [testng] [2025-05-19 14:21:09,119] [pool-1-thread-4] Initializing /data/wis/tiffs/RA_060110_051_scan1_slice1.tif: [testng] 14:21:09,119 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 14:21:09,119 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:21:09,120 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-05-19_14-21-09.log] [testng] 14:21:09,121 |-INFO in ch.qos.logback.core.sift.SiftProcessor@352e0d7e - End of configuration. [testng] [2025-05-19 14:21:23,906] [pool-1-thread-3] Initializing /data/wis/RA_240912_m1.g71/1/acqp: [testng] 14:21:23,906 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 14:21:23,906 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:21:23,907 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-05-19_14-21-23.log] [testng] 14:21:23,907 |-INFO in ch.qos.logback.core.sift.SiftProcessor@77a22f28 - End of configuration. [testng] [2025-05-19 14:22:15,961] [pool-1-thread-2] Initializing /data/wis/tiffs/hd111104p3_sH3_scan3_slice1_echo1.tif: [testng] 14:22:15,962 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 14:22:15,962 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:22:15,962 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-05-19_14-22-15.log] [testng] 14:22:15,963 |-INFO in ch.qos.logback.core.sift.SiftProcessor@177358a8 - End of configuration. [testng] [2025-05-19 14:23:50,212] [pool-1-thread-7] Initializing /data/wis/tiffs/RAf_100110_091_Scan3_Slice5.tif: [testng] [2025-05-19 14:24:02,084] [pool-1-thread-1] Initializing /data/wis/tiffs/hd111104p3_sH3_scan2_slice1.tif: [testng] [2025-05-19 14:24:16,470] [pool-1-thread-10] Initializing /data/wis/tiffs/RAf_100110_091_Scan6_Slice5_echo1.tif: [testng] [2025-05-19 14:24:33,263] [pool-1-thread-4] Initializing /data/wis/tiffs/RA_060110_051_scan2_slice6.tif: [testng] [2025-05-19 14:24:49,469] [pool-1-thread-9] Initializing /data/wis/tiffs/hd111104p3_sH3_scan1_slice1.tif: Build was aborted Calling Pipeline was cancelled Finished: ABORTED