Started by upstream project "BIOFORMATS-test-repo" build number 288 originally caused by: Started by upstream project "Trigger" build number 307 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@10 [BIOFORMATS-test-folder@10] $ /bin/bash -xe /tmp/jenkins15689891008870387007.sh + '[' analyze = slidebook ']' ++ date +%u + '[' 4 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_45534_merge_ci -v /uod/idr/repos/curated/analyze:/data -v /uod/idr-scratch/merge-ci/curated/analyze:/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warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] warning: [options] source value 8 is obsolete and will be removed in a future release [javac] warning: [options] target value 8 is obsolete and will be removed in a future release [javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options. [javac] 4 warnings test-automated: [testng] Could not load field socket from SocketImpl: java.lang.NoSuchFieldException: socket [testng] Could not load field serverSocket from SocketImpl: java.lang.NoSuchFieldException: serverSocket [testng] File leak detector installed [testng] 06:02:05,188 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 06:02:05,189 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - No custom configurators were discovered as a service. [testng] 06:02:05,189 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 06:02:05,190 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 06:02:05,191 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 06:02:05,191 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 06:02:05,191 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 06:02:05,191 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 06:02:05,192 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 06:02:05,192 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 06:02:05,192 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 06:02:05,193 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 06:02:05,347 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 06:02:05,347 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 06:02:05,372 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 06:02:05,372 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 06:02:05,377 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 06:02:05,378 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 06:02:05,378 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 06:02:05,378 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 06:02:05,378 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@29215f06 - End of configuration. [testng] 06:02:05,379 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@b9b00e0 - Registering current configuration as safe fallback point [testng] 06:02:05,379 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 187 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-12-12 06:02:05,387] [main] java.version = 21 [testng] 06:02:05,390 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 06:02:05,391 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:02:05,430 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-12_06-02-05.log] [testng] 06:02:05,432 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1b919693 - End of configuration. [testng] [2024-12-12 06:02:05,433] [main] testng.directory = /data [testng] [2024-12-12 06:02:05,434] [main] testng.configDirectory = /config [testng] [2024-12-12 06:02:05,442] [main] testng.multiplier = 1.0 [testng] [2024-12-12 06:02:05,442] [main] testng.in-memory = false [testng] [2024-12-12 06:02:05,442] [main] testng.allow-missing = false [testng] [2024-12-12 06:02:05,442] [main] user.language = en [testng] [2024-12-12 06:02:05,443] [main] user.country = ${user.country} [testng] [2024-12-12 06:02:05,443] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-12-12 06:02:37,118] [main] ---------------------------------------- [testng] [2024-12-12 06:02:37,118] [main] Total files: 21 [testng] [2024-12-12 06:02:37,118] [main] Scan time: 31.675 s (1508 ms/file) [testng] [2024-12-12 06:02:37,118] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 21 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-12-12 06:03:15,656] [pool-1-thread-1] Initializing /data/frans/CT_CHEST.hdr: [testng] 06:03:15,656 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 06:03:15,656 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:03:15,657 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-12_06-03-15.log] [testng] 06:03:15,658 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4de83ad7 - End of configuration. [testng] [2024-12-12 06:03:17,415] [pool-1-thread-12] Initializing /data/frans/Test Files for Frans/PLA-zm2-16mm_1002_MF_V1.hdr: [testng] 06:03:17,415 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 06:03:17,415 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:03:17,416 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-12_06-03-17.log] [testng] 06:03:17,417 |-INFO in ch.qos.logback.core.sift.SiftProcessor@72e6f648 - End of configuration. [testng] [2024-12-12 06:03:19,231] [pool-1-thread-11] Initializing /data/frans/brodmann.hdr: [testng] 06:03:19,232 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 06:03:19,232 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:03:19,233 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-12_06-03-19.log] [testng] 06:03:19,234 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5b97b877 - End of configuration. [testng] [2024-12-12 06:03:20,600] [pool-1-thread-10] Initializing /data/frans/CT_HAND.hdr: [testng] 06:03:20,600 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 06:03:20,600 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:03:20,601 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-12_06-03-20.log] [testng] 06:03:20,601 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3467d1f5 - End of configuration. [testng] [2024-12-12 06:03:22,133] [pool-1-thread-9] Initializing /data/frans/CT_WHOLE.hdr: [testng] 06:03:22,133 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 06:03:22,133 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:03:22,134 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-12_06-03-22.log] [testng] 06:03:22,134 |-INFO in ch.qos.logback.core.sift.SiftProcessor@22863cb2 - End of configuration. [testng] [2024-12-12 06:03:23,409] [pool-1-thread-8] Initializing /data/frans/Test Files for Frans/F005_1002_MF_SCAN1_stat_brain_fdg_JJ_Volume_Corrected.hdr: [testng] 06:03:23,409 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 06:03:23,409 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:03:23,410 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-12_06-03-23.log] [testng] 06:03:23,410 |-INFO in ch.qos.logback.core.sift.SiftProcessor@c81b07d - End of configuration. [testng] [2024-12-12 06:03:24,766] [pool-1-thread-7] Initializing /data/frans/CT_KNEE.hdr: [testng] 06:03:24,766 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 06:03:24,766 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:03:24,767 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-12_06-03-24.log] [testng] 06:03:24,767 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1b2a7d18 - End of configuration. [testng] [2024-12-12 06:03:26,204] [pool-1-thread-6] Initializing /data/frans/Test Files for Frans/1002-sag-transform-box-est_flip-ord.hdr: [testng] 06:03:26,204 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 06:03:26,204 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:03:26,205 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-12_06-03-26.log] [testng] 06:03:26,205 |-INFO in ch.qos.logback.core.sift.SiftProcessor@43948075 - End of configuration. [testng] [2024-12-12 06:03:27,970] [pool-1-thread-5] Initializing /data/frans/CT_CRANI.hdr: [testng] 06:03:27,970 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 06:03:27,970 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:03:27,971 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-12_06-03-27.log] [testng] 06:03:27,971 |-INFO in ch.qos.logback.core.sift.SiftProcessor@50c90478 - End of configuration. [testng] [2024-12-12 06:03:29,646] [pool-1-thread-4] Initializing /data/frans/Test Files for Frans/200-PLA_sansBD_spmT_0005.hdr: [testng] 06:03:29,646 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 06:03:29,646 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:03:29,647 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-12_06-03-29.log] [testng] 06:03:29,647 |-INFO in ch.qos.logback.core.sift.SiftProcessor@140b4a28 - End of configuration. [testng] [2024-12-12 06:03:31,437] [pool-1-thread-3] Initializing /data/frans/betmask.hdr: [testng] 06:03:31,437 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 06:03:31,437 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:03:31,438 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-12_06-03-31.log] [testng] 06:03:31,438 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3e1f4f9f - End of configuration. [testng] [2024-12-12 06:03:33,063] [pool-1-thread-2] Initializing /data/frans/CT_APERT.hdr: [testng] 06:03:33,063 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 06:03:33,063 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:03:33,064 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-12_06-03-33.log] [testng] 06:03:33,064 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6fe97e56 - End of configuration. [testng] [2024-12-12 06:03:52,286] [pool-1-thread-12] Initializing /data/frans/ch2.hdr: [testng] [2024-12-12 06:03:54,266] [pool-1-thread-9] Initializing /data/frans/CT_FOOT.hdr: [testng] [2024-12-12 06:03:56,053] [pool-1-thread-6] Initializing /data/frans/MR_CHEST.hdr: [testng] [2024-12-12 06:03:57,801] [pool-1-thread-7] Initializing /data/frans/m000-MR_CHEST.gif: [testng] [2024-12-12 06:03:58,052] [pool-1-thread-10] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1.img.hdr: [testng] [2024-12-12 06:03:59,746] [pool-1-thread-1] Initializing /data/frans/Test Files for Frans/06-101-mask-40pc2dil.hdr: [testng] [2024-12-12 06:04:01,303] [pool-1-thread-8] Initializing /data/frans/MR_SEGBRAIN.hdr: [testng] [2024-12-12 06:04:02,406] [pool-1-thread-3] Initializing /data/frans/ch2bet.hdr: [testng] [2024-12-12 06:04:04,069] [pool-1-thread-4] Initializing /data/frans/aal.hdr: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1113, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 2 minutes 18 seconds Finished: SUCCESS