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Started by upstream project "BIOFORMATS-test-repo" build number 282 originally caused by: Started by user devspace Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@9 [BIOFORMATS-test-folder@9] $ /bin/bash -xe /tmp/jenkins17009665380093151945.sh + '[' psd = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_44570_merge_ci -v /uod/idr/repos/curated/psd:/data -v /uod/idr-scratch/merge-ci/curated/psd:/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] 13:02:02,435 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 13:02:02,437 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 13:02:02,437 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 13:02:02,438 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 13:02:02,438 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 13:02:02,438 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 13:02:02,439 |-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] 13:02:02,439 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 13:02:02,439 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 13:02:02,440 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 13:02:02,440 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 13:02:02,440 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 13:02:02,763 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 13:02:02,764 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 13:02:02,794 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 13:02:02,794 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 13:02:02,803 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 13:02:02,804 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 13:02:02,804 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 13:02:02,804 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 13:02:02,804 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 13:02:02,805 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 13:02:02,805 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 366 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-12-06 13:02:02,818] [main] java.version = 1.8.0_342 [testng] 13:02:02,823 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 13:02:02,823 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:02:02,877 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-06_13-02-02.log] [testng] 13:02:02,879 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2024-12-06 13:02:02,881] [main] testng.directory = /data [testng] [2024-12-06 13:02:02,881] [main] testng.configDirectory = /config [testng] [2024-12-06 13:02:02,894] [main] testng.multiplier = 1.0 [testng] [2024-12-06 13:02:02,894] [main] testng.in-memory = false [testng] [2024-12-06 13:02:02,895] [main] testng.allow-missing = false [testng] [2024-12-06 13:02:02,895] [main] user.language = en [testng] [2024-12-06 13:02:02,895] [main] user.country = ${user.country} [testng] [2024-12-06 13:02:02,895] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-12-06 13:02:03,705] [main] ---------------------------------------- [testng] [2024-12-06 13:02:03,705] [main] Total files: 18 [testng] [2024-12-06 13:02:03,705] [main] Scan time: 0.81 s (45 ms/file) [testng] [2024-12-06 13:02:03,705] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 18 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-12-06 13:02:15,174] [pool-1-thread-1] Initializing /data/ascb/423.psd: [testng] 13:02:15,174 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 13:02:15,174 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:02:15,175 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-06_13-02-15.log] [testng] 13:02:15,175 |-INFO in ch.qos.logback.core.sift.SiftProcessor@194766b4 - End of configuration. [testng] [2024-12-06 13:02:15,661] [pool-1-thread-12] Initializing /data/jcb/Fig5A_sicont6h.tif: [testng] 13:02:15,662 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 13:02:15,662 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:02:15,662 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-06_13-02-15.log] [testng] 13:02:15,663 |-INFO in ch.qos.logback.core.sift.SiftProcessor@d20a27b - End of configuration. [testng] [2024-12-06 13:02:16,447] [pool-1-thread-11] Initializing /data/jcb/Fig5A_siHP16h.tif: [testng] 13:02:16,447 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 13:02:16,447 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:02:16,448 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-06_13-02-16.log] [testng] 13:02:16,449 |-INFO in ch.qos.logback.core.sift.SiftProcessor@77d9da33 - End of configuration. [testng] [2024-12-06 13:02:17,124] [pool-1-thread-10] Initializing /data/big-images/8kx8k.psd: [testng] 13:02:17,125 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 13:02:17,125 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:02:17,125 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-06_13-02-17.log] [testng] 13:02:17,126 |-INFO in ch.qos.logback.core.sift.SiftProcessor@25d9b240 - End of configuration. [testng] [2024-12-06 13:02:17,698] [pool-1-thread-9] Initializing /data/qa-7632/23283078__NA_NA_27343.psd: [testng] 13:02:17,698 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 13:02:17,698 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:02:17,699 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-06_13-02-17.log] [testng] 13:02:17,699 |-INFO in ch.qos.logback.core.sift.SiftProcessor@f6db68e - End of configuration. [testng] [2024-12-06 13:02:18,336] [pool-1-thread-8] Initializing /data/misc/glossy_buttons.psd: [testng] 13:02:18,336 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 13:02:18,336 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:02:18,337 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-06_13-02-18.log] [testng] 13:02:18,337 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3baa194d - End of configuration. [testng] [2024-12-06 13:02:19,023] [pool-1-thread-7] Initializing /data/qa-4497/22421435_Supl Fig 4_C_Flag_12987.psd: [testng] 13:02:19,024 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 13:02:19,024 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:02:19,024 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-06_13-02-19.log] [testng] 13:02:19,025 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6c2dd770 - End of configuration. [testng] [2024-12-06 13:02:19,710] [pool-1-thread-6] Initializing /data/simon/colour_separated_image.psd: [testng] 13:02:19,711 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 13:02:19,711 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:02:19,711 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-06_13-02-19.log] [testng] 13:02:19,712 |-INFO in ch.qos.logback.core.sift.SiftProcessor@d51c603 - End of configuration. [testng] [2024-12-06 13:02:20,300] [pool-1-thread-5] Initializing /data/misc/smilie.psd: [testng] 13:02:20,301 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 13:02:20,301 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:02:20,302 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-06_13-02-20.log] [testng] 13:02:20,302 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1540e442 - End of configuration. [testng] [2024-12-06 13:02:21,156] [pool-1-thread-4] Initializing /data/misc/venus_composite_8bit.psd: [testng] 13:02:21,156 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 13:02:21,156 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:02:21,157 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-06_13-02-21.log] [testng] 13:02:21,157 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7bd77f86 - End of configuration. [testng] [2024-12-06 13:02:21,802] [pool-1-thread-3] Initializing /data/ascb/607x.psd: [testng] 13:02:21,803 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 13:02:21,803 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:02:21,803 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-06_13-02-21.log] [testng] 13:02:21,804 |-INFO in ch.qos.logback.core.sift.SiftProcessor@153c3e4b - End of configuration. [testng] [2024-12-06 13:02:22,465] [pool-1-thread-2] Initializing /data/ascb/thin&thick fill.2.psd: [testng] 13:02:22,465 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 13:02:22,465 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:02:22,466 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-06_13-02-22.log] [testng] 13:02:22,466 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4417dba2 - End of configuration. [testng] [2024-12-06 13:02:30,868] [pool-1-thread-6] Initializing /data/jcb/Fig5A_sip1506h.tif: [testng] [2024-12-06 13:02:31,541] [pool-1-thread-8] Initializing /data/misc/venus_composite.psd: [testng] [2024-12-06 13:02:32,077] [pool-1-thread-7] Initializing /data/misc/glossy_orbs.psd: [testng] [2024-12-06 13:02:32,620] [pool-1-thread-5] Initializing /data/cris/house.tif: [testng] [2024-12-06 13:02:34,321] [pool-1-thread-12] Initializing /data/qa-4117/caspase gel-1.psd: [testng] [2024-12-06 13:02:34,849] [pool-1-thread-4] Initializing /data/misc/vig_drawing_1.psd: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 954, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 48 seconds Finished: SUCCESS