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Started by upstream project "BIOFORMATS-test-repo" build number 289 originally caused by: Started by upstream project "Trigger" build number 308 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/jenkins11205266806848860178.sh + '[' analyze = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_45698_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 test-automated: [testng] File leak detector installed [testng] 05:35:19,211 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 05:35:19,212 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 05:35:19,212 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 05:35:19,213 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 05:35:19,213 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 05:35:19,213 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 05:35:19,214 |-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] 05:35:19,214 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 05:35:19,214 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 05:35:19,215 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 05:35:19,215 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 05:35:19,215 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 05:35:19,429 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 05:35:19,429 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 05:35:19,456 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 05:35:19,456 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 05:35:19,463 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 05:35:19,463 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 05:35:19,463 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 05:35:19,464 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 05:35:19,464 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 05:35:19,465 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 05:35:19,465 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 251 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-12-13 05:35:19,474] [main] java.version = 1.8.0_342 [testng] 05:35:19,477 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 05:35:19,477 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:35:19,521 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-13_05-35-19.log] [testng] 05:35:19,522 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2024-12-13 05:35:19,524] [main] testng.directory = /data [testng] [2024-12-13 05:35:19,524] [main] testng.configDirectory = /config [testng] [2024-12-13 05:35:19,535] [main] testng.multiplier = 1.0 [testng] [2024-12-13 05:35:19,536] [main] testng.in-memory = false [testng] [2024-12-13 05:35:19,536] [main] testng.allow-missing = false [testng] [2024-12-13 05:35:19,536] [main] user.language = en [testng] [2024-12-13 05:35:19,536] [main] user.country = ${user.country} [testng] [2024-12-13 05:35:19,536] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-12-13 05:35:46,129] [main] ---------------------------------------- [testng] [2024-12-13 05:35:46,129] [main] Total files: 21 [testng] [2024-12-13 05:35:46,129] [main] Scan time: 26.593 s (1266 ms/file) [testng] [2024-12-13 05:35:46,129] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 21 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-12-13 05:36:16,836] [pool-1-thread-1] Initializing /data/frans/m000-MR_CHEST.gif: [testng] 05:36:16,837 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 05:36:16,837 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:36:16,838 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-13_05-36-16.log] [testng] 05:36:16,838 |-INFO in ch.qos.logback.core.sift.SiftProcessor@481edd0f - End of configuration. [testng] [2024-12-13 05:36:17,326] [pool-1-thread-12] Initializing /data/frans/betmask.hdr: [testng] 05:36:17,326 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 05:36:17,326 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:36:17,327 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-13_05-36-17.log] [testng] 05:36:17,327 |-INFO in ch.qos.logback.core.sift.SiftProcessor@164847a - End of configuration. [testng] [2024-12-13 05:36:19,153] [pool-1-thread-11] Initializing /data/frans/Test Files for Frans/PLA-zm2-16mm_1002_MF_V1.hdr: [testng] 05:36:19,154 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 05:36:19,154 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:36:19,154 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-13_05-36-19.log] [testng] 05:36:19,155 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4221a259 - End of configuration. [testng] [2024-12-13 05:36:20,858] [pool-1-thread-10] Initializing /data/frans/MR_SEGBRAIN.hdr: [testng] 05:36:20,858 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 05:36:20,858 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:36:20,859 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-13_05-36-20.log] [testng] 05:36:20,859 |-INFO in ch.qos.logback.core.sift.SiftProcessor@394ae44e - End of configuration. [testng] [2024-12-13 05:36:22,703] [pool-1-thread-9] Initializing /data/frans/Test Files for Frans/1002-sag-transform-box-est_flip-ord.hdr: [testng] 05:36:22,704 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 05:36:22,704 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:36:22,704 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-13_05-36-22.log] [testng] 05:36:22,705 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2c9625fc - End of configuration. [testng] [2024-12-13 05:36:25,355] [pool-1-thread-8] Initializing /data/frans/aal.hdr: [testng] 05:36:25,355 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 05:36:25,355 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:36:25,356 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-13_05-36-25.log] [testng] 05:36:25,356 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2121d60 - End of configuration. [testng] [2024-12-13 05:36:28,755] [pool-1-thread-7] Initializing /data/frans/CT_KNEE.hdr: [testng] 05:36:28,755 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 05:36:28,755 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:36:28,756 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-13_05-36-28.log] [testng] 05:36:28,756 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5718b32 - End of configuration. [testng] [2024-12-13 05:36:31,479] [pool-1-thread-6] Initializing /data/frans/MR_CHEST.hdr: [testng] 05:36:31,479 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 05:36:31,479 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:36:31,480 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-13_05-36-31.log] [testng] 05:36:31,480 |-INFO in ch.qos.logback.core.sift.SiftProcessor@10857d79 - End of configuration. [testng] [2024-12-13 05:36:33,575] [pool-1-thread-5] Initializing /data/frans/CT_CRANI.hdr: [testng] 05:36:33,575 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 05:36:33,575 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:36:33,576 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-13_05-36-33.log] [testng] 05:36:33,576 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4a0e939b - End of configuration. [testng] [2024-12-13 05:36:35,530] [pool-1-thread-4] Initializing /data/frans/ch2.hdr: [testng] 05:36:35,530 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 05:36:35,530 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:36:35,531 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-13_05-36-35.log] [testng] 05:36:35,531 |-INFO in ch.qos.logback.core.sift.SiftProcessor@508093ae - End of configuration. [testng] [2024-12-13 05:36:36,913] [pool-1-thread-3] Initializing /data/frans/CT_WHOLE.hdr: [testng] 05:36:36,913 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 05:36:36,913 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:36:36,914 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-13_05-36-36.log] [testng] 05:36:36,914 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6f6e3595 - End of configuration. [testng] [2024-12-13 05:36:38,251] [pool-1-thread-2] Initializing /data/frans/Test Files for Frans/F005_1002_MF_SCAN1_stat_brain_fdg_JJ_Volume_Corrected.hdr: [testng] 05:36:38,251 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 05:36:38,251 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:36:38,252 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-13_05-36-38.log] [testng] 05:36:38,252 |-INFO in ch.qos.logback.core.sift.SiftProcessor@78329d0a - End of configuration. [testng] [2024-12-13 05:36:44,599] [pool-1-thread-1] Initializing /data/frans/CT_FOOT.hdr: [testng] [2024-12-13 05:36:57,900] [pool-1-thread-12] Initializing /data/frans/CT_CHEST.hdr: [testng] [2024-12-13 05:36:59,719] [pool-1-thread-8] Initializing /data/frans/ch2bet.hdr: [testng] [2024-12-13 05:37:00,954] [pool-1-thread-9] Initializing /data/frans/CT_HAND.hdr: [testng] [2024-12-13 05:37:02,420] [pool-1-thread-6] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1.img.hdr: [testng] [2024-12-13 05:37:04,672] [pool-1-thread-10] Initializing /data/frans/CT_APERT.hdr: [testng] [2024-12-13 05:37:06,931] [pool-1-thread-4] Initializing /data/frans/Test Files for Frans/200-PLA_sansBD_spmT_0005.hdr: [testng] [2024-12-13 05:37:08,506] [pool-1-thread-11] Initializing /data/frans/brodmann.hdr: [testng] [2024-12-13 05:37:09,919] [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 12 seconds Finished: SUCCESS