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Started by upstream project "BIOFORMATS-test-repo" build number 292 originally caused by: Started by upstream project "Trigger" build number 311 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@7 [BIOFORMATS-test-folder@7] $ /bin/bash -xe /tmp/jenkins7332468534904821008.sh + '[' analyze = 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_46190_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 -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] 05:47:30,302 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 05:47:30,303 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 05:47:30,303 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 05:47:30,304 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 05:47:30,304 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 05:47:30,304 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 05:47:30,305 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 05:47:30,305 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 05:47:30,305 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 05:47:30,305 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 05:47:30,306 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 05:47:30,306 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 05:47:30,519 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 05:47:30,519 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 05:47:30,545 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 05:47:30,545 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 05:47:30,553 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 05:47:30,553 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 05:47:30,553 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 05:47:30,553 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 05:47:30,553 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 05:47:30,554 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 05:47:30,554 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 249 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-12-16 05:47:30,564] [main] java.version = 1.8.0_342 [testng] 05:47:30,567 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 05:47:30,567 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:47:30,610 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-16_05-47-30.log] [testng] 05:47:30,611 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2024-12-16 05:47:30,613] [main] testng.directory = /data [testng] [2024-12-16 05:47:30,613] [main] testng.configDirectory = /config [testng] [2024-12-16 05:47:30,624] [main] testng.multiplier = 1.0 [testng] [2024-12-16 05:47:30,625] [main] testng.in-memory = false [testng] [2024-12-16 05:47:30,625] [main] testng.allow-missing = false [testng] [2024-12-16 05:47:30,625] [main] user.language = fr [testng] [2024-12-16 05:47:30,625] [main] user.country = FR [testng] [2024-12-16 05:47:30,625] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-12-16 05:48:00,838] [main] ---------------------------------------- [testng] [2024-12-16 05:48:00,839] [main] Total files: 21 [testng] [2024-12-16 05:48:00,839] [main] Scan time: 30.213 s (1438 ms/file) [testng] [2024-12-16 05:48:00,839] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 21 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-12-16 05:48:37,221] [pool-1-thread-1] Initializing /data/frans/m000-MR_CHEST.gif: [testng] 05:48:37,221 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 05:48:37,221 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:48:37,222 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-16_05-48-37.log] [testng] 05:48:37,223 |-INFO in ch.qos.logback.core.sift.SiftProcessor@48854c44 - End of configuration. [testng] [2024-12-16 05:48:37,571] [pool-1-thread-12] Initializing /data/frans/betmask.hdr: [testng] 05:48:37,571 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 05:48:37,571 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:48:37,572 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-16_05-48-37.log] [testng] 05:48:37,573 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2d08a6a8 - End of configuration. [testng] [2024-12-16 05:48:39,379] [pool-1-thread-11] Initializing /data/frans/Test Files for Frans/PLA-zm2-16mm_1002_MF_V1.hdr: [testng] 05:48:39,379 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 05:48:39,379 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:48:39,380 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-16_05-48-39.log] [testng] 05:48:39,380 |-INFO in ch.qos.logback.core.sift.SiftProcessor@cfc805d - End of configuration. [testng] [2024-12-16 05:48:40,862] [pool-1-thread-10] Initializing /data/frans/MR_SEGBRAIN.hdr: [testng] 05:48:40,863 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 05:48:40,863 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:48:40,863 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-16_05-48-40.log] [testng] 05:48:40,864 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4221a259 - End of configuration. [testng] [2024-12-16 05:48:42,322] [pool-1-thread-9] Initializing /data/frans/Test Files for Frans/1002-sag-transform-box-est_flip-ord.hdr: [testng] 05:48:42,322 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 05:48:42,322 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:48:42,323 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-16_05-48-42.log] [testng] 05:48:42,323 |-INFO in ch.qos.logback.core.sift.SiftProcessor@394ae44e - End of configuration. [testng] [2024-12-16 05:48:43,945] [pool-1-thread-8] Initializing /data/frans/aal.hdr: [testng] 05:48:43,946 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 05:48:43,946 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:48:43,946 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-16_05-48-43.log] [testng] 05:48:43,947 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6994be0a - End of configuration. [testng] [2024-12-16 05:48:45,575] [pool-1-thread-7] Initializing /data/frans/CT_KNEE.hdr: [testng] 05:48:45,576 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 05:48:45,576 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:48:45,576 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-16_05-48-45.log] [testng] 05:48:45,577 |-INFO in ch.qos.logback.core.sift.SiftProcessor@47109be6 - End of configuration. [testng] [2024-12-16 05:48:46,983] [pool-1-thread-6] Initializing /data/frans/MR_CHEST.hdr: [testng] 05:48:46,984 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 05:48:46,984 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:48:46,984 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-16_05-48-46.log] [testng] 05:48:46,985 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5718b32 - End of configuration. [testng] [2024-12-16 05:48:49,623] [pool-1-thread-5] Initializing /data/frans/CT_CRANI.hdr: [testng] 05:48:49,624 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 05:48:49,624 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:48:49,624 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-16_05-48-49.log] [testng] 05:48:49,625 |-INFO in ch.qos.logback.core.sift.SiftProcessor@10857d79 - End of configuration. [testng] [2024-12-16 05:48:50,939] [pool-1-thread-4] Initializing /data/frans/ch2.hdr: [testng] 05:48:50,939 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 05:48:50,939 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:48:50,940 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-16_05-48-50.log] [testng] 05:48:50,940 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4a0e939b - End of configuration. [testng] [2024-12-16 05:48:52,459] [pool-1-thread-3] Initializing /data/frans/CT_WHOLE.hdr: [testng] 05:48:52,459 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 05:48:52,459 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:48:52,460 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-16_05-48-52.log] [testng] 05:48:52,461 |-INFO in ch.qos.logback.core.sift.SiftProcessor@508093ae - End of configuration. [testng] [2024-12-16 05:48:53,916] [pool-1-thread-2] Initializing /data/frans/Test Files for Frans/F005_1002_MF_SCAN1_stat_brain_fdg_JJ_Volume_Corrected.hdr: [testng] 05:48:53,917 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 05:48:53,917 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:48:53,917 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-16_05-48-53.log] [testng] 05:48:53,918 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1dfaf1cf - End of configuration. [testng] [2024-12-16 05:49:01,192] [pool-1-thread-1] Initializing /data/frans/CT_FOOT.hdr: [testng] [2024-12-16 05:49:14,903] [pool-1-thread-12] Initializing /data/frans/CT_CHEST.hdr: [testng] [2024-12-16 05:49:17,273] [pool-1-thread-5] Initializing /data/frans/ch2bet.hdr: [testng] [2024-12-16 05:49:20,128] [pool-1-thread-9] Initializing /data/frans/CT_HAND.hdr: [testng] [2024-12-16 05:49:21,827] [pool-1-thread-6] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1.img.hdr: [testng] [2024-12-16 05:49:23,380] [pool-1-thread-7] Initializing /data/frans/CT_APERT.hdr: [testng] [2024-12-16 05:49:25,015] [pool-1-thread-4] Initializing /data/frans/Test Files for Frans/200-PLA_sansBD_spmT_0005.hdr: [testng] [2024-12-16 05:49:26,640] [pool-1-thread-11] Initializing /data/frans/brodmann.hdr: [testng] [2024-12-16 05:49:28,347] [pool-1-thread-2] Initializing /data/frans/Test Files for Frans/06-101-mask-40pc2dil.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 22 seconds Finished: SUCCESS