Started by upstream project "BIOFORMATS-test-repo" build number 364 originally caused by: Started by upstream project "Trigger" build number 390 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@5 [BIOFORMATS-test-folder@5] $ /bin/bash -xe /tmp/jenkins4254593604250296279.sh + '[' analyze = slidebook ']' ++ date +%u + '[' 2 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_58076_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] 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] 02:57:58,980 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15 [testng] 02:57:58,982 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4d910fd6 - No custom configurators were discovered as a service. [testng] 02:57:58,982 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4d910fd6 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:57:58,983 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4d910fd6 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:57:58,983 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 02:57:58,984 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 02:57:58,984 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4d910fd6 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 02:57:58,984 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4d910fd6 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:57:58,984 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4d910fd6 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:57:58,985 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 02:57:58,985 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 02:57:58,986 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 02:57:59,160 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:57:59,160 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:57:59,183 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:57:59,183 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:57:59,189 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:57:59,189 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:57:59,189 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:57:59,189 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:57:59,190 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@65c7a252 - End of configuration. [testng] 02:57:59,190 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@38cee291 - Registering current configuration as safe fallback point [testng] 02:57:59,190 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4d910fd6 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 206 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-03-04 02:57:59,200] [main] java.version = 11.0.16 [testng] 02:57:59,203 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:57:59,203 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:57:59,245 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-03-04_02-57-59.log] [testng] 02:57:59,247 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13d73f29 - End of configuration. [testng] [2025-03-04 02:57:59,249] [main] testng.directory = /data [testng] [2025-03-04 02:57:59,249] [main] testng.configDirectory = /config [testng] [2025-03-04 02:57:59,259] [main] testng.multiplier = 1.0 [testng] [2025-03-04 02:57:59,260] [main] testng.in-memory = false [testng] [2025-03-04 02:57:59,260] [main] testng.allow-missing = false [testng] [2025-03-04 02:57:59,261] [main] user.language = en [testng] [2025-03-04 02:57:59,261] [main] user.country = ${user.country} [testng] [2025-03-04 02:57:59,261] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2025-03-04 02:58:09,700] [main] ---------------------------------------- [testng] [2025-03-04 02:58:09,701] [main] Total files: 21 [testng] [2025-03-04 02:58:09,701] [main] Scan time: 10.439 s (497 ms/file) [testng] [2025-03-04 02:58:09,701] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 21 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-03-04 02:58:20,038] [pool-1-thread-1] Initializing /data/frans/Test Files for Frans/06-101-mask-40pc2dil.hdr: [testng] 02:58:20,039 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:58:20,039 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:58:20,042 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-03-04_02-58-20.log] [testng] 02:58:20,042 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1ba46e00 - End of configuration. [testng] [2025-03-04 02:58:20,480] [pool-1-thread-12] Initializing /data/frans/CT_CRANI.hdr: [testng] 02:58:20,481 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:58:20,481 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:58:20,482 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-03-04_02-58-20.log] [testng] 02:58:20,482 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2024cd71 - End of configuration. [testng] [2025-03-04 02:58:20,918] [pool-1-thread-11] Initializing /data/frans/CT_KNEE.hdr: [testng] 02:58:20,918 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:58:20,918 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:58:20,919 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-03-04_02-58-20.log] [testng] 02:58:20,919 |-INFO in ch.qos.logback.core.sift.SiftProcessor@219f1a2 - End of configuration. [testng] [2025-03-04 02:58:21,387] [pool-1-thread-10] Initializing /data/frans/ch2bet.hdr: [testng] 02:58:21,387 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:58:21,387 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:58:21,388 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-03-04_02-58-21.log] [testng] 02:58:21,388 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2bb4c01a - End of configuration. [testng] [2025-03-04 02:58:21,830] [pool-1-thread-9] Initializing /data/frans/CT_WHOLE.hdr: [testng] 02:58:21,830 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:58:21,830 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:58:21,831 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-03-04_02-58-21.log] [testng] 02:58:21,832 |-INFO in ch.qos.logback.core.sift.SiftProcessor@505c9456 - End of configuration. [testng] [2025-03-04 02:58:22,260] [pool-1-thread-8] Initializing /data/frans/brodmann.hdr: [testng] 02:58:22,260 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:58:22,261 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:58:22,261 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-03-04_02-58-22.log] [testng] 02:58:22,261 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5028b974 - End of configuration. [testng] [2025-03-04 02:58:22,714] [pool-1-thread-7] Initializing /data/frans/aal.hdr: [testng] 02:58:22,714 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:58:22,714 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:58:22,715 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-03-04_02-58-22.log] [testng] 02:58:22,715 |-INFO in ch.qos.logback.core.sift.SiftProcessor@42db60c3 - End of configuration. [testng] [2025-03-04 02:58:23,187] [pool-1-thread-6] Initializing /data/frans/Test Files for Frans/PLA-zm2-16mm_1002_MF_V1.hdr: [testng] 02:58:23,187 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:58:23,187 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:58:23,188 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-03-04_02-58-23.log] [testng] 02:58:23,188 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3a85e9c6 - End of configuration. [testng] [2025-03-04 02:58:23,614] [pool-1-thread-5] Initializing /data/frans/Test Files for Frans/1002-sag-transform-box-est_flip-ord.hdr: [testng] 02:58:23,614 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:58:23,614 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:58:23,615 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-03-04_02-58-23.log] [testng] 02:58:23,615 |-INFO in ch.qos.logback.core.sift.SiftProcessor@fa7e76f - End of configuration. [testng] [2025-03-04 02:58:24,046] [pool-1-thread-4] Initializing /data/frans/ch2.hdr: [testng] 02:58:24,046 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:58:24,046 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:58:24,047 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-03-04_02-58-24.log] [testng] 02:58:24,047 |-INFO in ch.qos.logback.core.sift.SiftProcessor@62a54eee - End of configuration. [testng] [2025-03-04 02:58:24,485] [pool-1-thread-3] Initializing /data/frans/CT_HAND.hdr: [testng] 02:58:24,485 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:58:24,485 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:58:24,485 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-03-04_02-58-24.log] [testng] 02:58:24,486 |-INFO in ch.qos.logback.core.sift.SiftProcessor@26fbf597 - End of configuration. [testng] [2025-03-04 02:58:24,916] [pool-1-thread-2] Initializing /data/frans/m000-MR_CHEST.gif: [testng] 02:58:24,916 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:58:24,916 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:58:24,917 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-03-04_02-58-24.log] [testng] 02:58:24,917 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5dcbb3c9 - End of configuration. [testng] [2025-03-04 02:58:27,308] [pool-1-thread-2] Initializing /data/frans/Test Files for Frans/200-PLA_sansBD_spmT_0005.hdr: [testng] [2025-03-04 02:58:31,150] [pool-1-thread-1] Initializing /data/frans/CT_CHEST.hdr: [testng] [2025-03-04 02:58:31,670] [pool-1-thread-6] Initializing /data/frans/MR_CHEST.hdr: [testng] [2025-03-04 02:58:32,131] [pool-1-thread-9] Initializing /data/frans/CT_FOOT.hdr: [testng] [2025-03-04 02:58:32,580] [pool-1-thread-8] Initializing /data/frans/CT_APERT.hdr: [testng] [2025-03-04 02:58:33,001] [pool-1-thread-5] Initializing /data/frans/MR_SEGBRAIN.hdr: [testng] [2025-03-04 02:58:33,444] [pool-1-thread-10] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1.img.hdr: [testng] [2025-03-04 02:58:33,880] [pool-1-thread-3] Initializing /data/frans/betmask.hdr: [testng] [2025-03-04 02:58:34,331] [pool-1-thread-4] Initializing /data/frans/Test Files for Frans/F005_1002_MF_SCAN1_stat_brain_fdg_JJ_Volume_Corrected.hdr: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1113, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 43 seconds Finished: SUCCESS