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Started by upstream project "BIOFORMATS-test-repo" build number 365 originally caused by: Started by upstream project "Trigger" build number 391 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@3 [BIOFORMATS-test-folder@3] $ /bin/bash -xe /tmp/jenkins9925317343144926212.sh + '[' imagepro = slidebook ']' ++ date +%u + '[' 3 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_58286_merge_ci -v /uod/idr/repos/curated/imagepro:/data -v /uod/idr-scratch/merge-ci/curated/imagepro:/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] 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] 06:53:56,460 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15 [testng] 06:53:56,461 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - No custom configurators were discovered as a service. [testng] 06:53:56,461 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 06:53:56,462 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 06:53:56,462 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 06:53:56,462 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 06:53:56,463 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 06:53:56,463 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 06:53:56,463 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 06:53:56,464 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 06:53:56,464 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 06:53:56,464 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 06:53:56,616 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 06:53:56,616 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 06:53:56,636 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 06:53:56,636 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 06:53:56,641 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 06:53:56,641 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 06:53:56,641 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 06:53:56,642 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 06:53:56,642 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@3f6f6701 - End of configuration. [testng] 06:53:56,642 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@4f80542f - Registering current configuration as safe fallback point [testng] 06:53:56,642 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 179 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-03-05 06:53:56,651] [main] java.version = 17.0.2 [testng] 06:53:56,654 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 06:53:56,654 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:53:56,692 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-03-05_06-53-56.log] [testng] 06:53:56,694 |-INFO in ch.qos.logback.core.sift.SiftProcessor@14bdbc74 - End of configuration. [testng] [2025-03-05 06:53:56,695] [main] testng.directory = /data [testng] [2025-03-05 06:53:56,696] [main] testng.configDirectory = /config [testng] [2025-03-05 06:53:56,704] [main] testng.multiplier = 1.0 [testng] [2025-03-05 06:53:56,704] [main] testng.in-memory = false [testng] [2025-03-05 06:53:56,704] [main] testng.allow-missing = false [testng] [2025-03-05 06:53:56,704] [main] user.language = en [testng] [2025-03-05 06:53:56,705] [main] user.country = ${user.country} [testng] [2025-03-05 06:53:56,705] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2025-03-05 06:54:07,399] [main] ---------------------------------------- [testng] [2025-03-05 06:54:07,399] [main] Total files: 22 [testng] [2025-03-05 06:54:07,399] [main] Scan time: 10.694 s (486 ms/file) [testng] [2025-03-05 06:54:07,399] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 21 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-03-05 06:54:50,640] [pool-1-thread-1] Initializing /data/converted/mitosis-test.seq: [testng] 06:54:50,641 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 06:54:50,641 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:54:50,642 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-03-05_06-54-50.log] [testng] 06:54:50,642 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1b667125 - End of configuration. [testng] [2025-03-05 06:54:51,935] [pool-1-thread-12] Initializing /data/alex/AFAset0003.ips: [testng] 06:54:51,935 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 06:54:51,935 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:54:51,936 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-03-05_06-54-51.log] [testng] 06:54:51,937 |-INFO in ch.qos.logback.core.sift.SiftProcessor@718c0848 - End of configuration. [testng] [2025-03-05 06:54:53,400] [pool-1-thread-11] Initializing /data/samples/TISSUE.TIF: [testng] 06:54:53,401 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 06:54:53,401 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:54:53,401 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-03-05_06-54-53.log] [testng] 06:54:53,402 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2d183be5 - End of configuration. [testng] [2025-03-05 06:54:56,809] [pool-1-thread-10] Initializing /data/converted/clown8c.tif: [testng] 06:54:56,809 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 06:54:56,809 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:54:56,810 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-03-05_06-54-56.log] [testng] 06:54:56,810 |-INFO in ch.qos.logback.core.sift.SiftProcessor@50f6351b - End of configuration. [testng] [2025-03-05 06:55:00,347] [pool-1-thread-9] Initializing /data/converted/NESb_C2_TP7.tiff: [testng] 06:55:00,347 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 06:55:00,347 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:55:00,348 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-03-05_06-55-00.log] [testng] 06:55:00,348 |-INFO in ch.qos.logback.core.sift.SiftProcessor@88591e5 - End of configuration. [testng] [2025-03-05 06:55:03,450] [pool-1-thread-8] Initializing /data/converted/NESb_C2_TP7.ipw: [testng] 06:55:03,450 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 06:55:03,450 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:55:03,451 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-03-05_06-55-03.log] [testng] 06:55:03,451 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4dacb45d - End of configuration. [testng] [2025-03-05 06:55:04,648] [pool-1-thread-7] Initializing /data/converted/clown8c.ipw: [testng] 06:55:04,648 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 06:55:04,648 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:55:04,649 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-03-05_06-55-04.log] [testng] 06:55:04,649 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13a088ec - End of configuration. [testng] [2025-03-05 06:55:05,761] [pool-1-thread-6] Initializing /data/xiuwen/head2.seq: [testng] 06:55:05,761 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 06:55:05,761 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:55:05,762 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-03-05_06-55-05.log] [testng] 06:55:05,762 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5c84b24c - End of configuration. [testng] [2025-03-05 06:55:07,240] [pool-1-thread-5] Initializing /data/converted/dub01.seq: [testng] 06:55:07,240 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 06:55:07,240 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:55:07,240 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-03-05_06-55-07.log] [testng] 06:55:07,241 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3da10a4e - End of configuration. [testng] [2025-03-05 06:55:08,874] [pool-1-thread-4] Initializing /data/converted/clown.seq: [testng] 06:55:08,874 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 06:55:08,874 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:55:08,875 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-03-05_06-55-08.log] [testng] 06:55:08,875 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1a65fe9a - End of configuration. [testng] [2025-03-05 06:55:10,444] [pool-1-thread-3] Initializing /data/converted/clown.ipw: [testng] 06:55:10,444 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 06:55:10,444 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:55:10,445 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-03-05_06-55-10.log] [testng] 06:55:10,445 |-INFO in ch.qos.logback.core.sift.SiftProcessor@a13c7 - End of configuration. [testng] [2025-03-05 06:55:12,023] [pool-1-thread-2] Initializing /data/converted/clown8c.seq: [testng] 06:55:12,023 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 06:55:12,023 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:55:12,024 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-03-05_06-55-12.log] [testng] 06:55:12,024 |-INFO in ch.qos.logback.core.sift.SiftProcessor@250475be - End of configuration. [testng] [2025-03-05 06:55:24,230] [pool-1-thread-7] Initializing /data/samples/PROBE.TIF: [testng] [2025-03-05 06:55:25,703] [pool-1-thread-3] Initializing /data/converted/mitosis-test.tif: [testng] [2025-03-05 06:55:29,025] [pool-1-thread-2] Initializing /data/samples/HEART.SEQ: [testng] [2025-03-05 06:55:30,326] [pool-1-thread-4] Initializing /data/converted/dub01.ipw: [testng] [2025-03-05 06:55:31,850] [pool-1-thread-8] Initializing /data/converted/clown.tif: [testng] [2025-03-05 06:55:33,359] [pool-1-thread-1] Initializing /data/converted/mitosis-test.ipw: [testng] [2025-03-05 06:55:34,766] [pool-1-thread-5] Initializing /data/converted/dub01.pic: [testng] [2025-03-05 06:55:37,435] [pool-1-thread-6] Initializing /data/converted/NESb_C2_TP7.seq: [testng] [2025-03-05 06:55:45,859] [pool-1-thread-10] Initializing /data/samples/FLDUAL.TIF: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1113, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 8 minutes 17 seconds Finished: SUCCESS