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Started by upstream project "BIOFORMATS-test-repo" build number 380 originally caused by: Started by upstream project "Trigger" build number 402 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/jenkins6853516201962198046.sh + '[' imagepro = slidebook ']' ++ date +%u + '[' 7 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_60220_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] 23:58:17,310 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15 [testng] 23:58:17,311 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - No custom configurators were discovered as a service. [testng] 23:58:17,311 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 23:58:17,312 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 23:58:17,313 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 23:58:17,313 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 23:58:17,313 |-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] 23:58:17,313 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 23:58:17,314 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 23:58:17,314 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 23:58:17,315 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 23:58:17,315 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 23:58:17,482 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 23:58:17,482 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 23:58:17,504 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 23:58:17,504 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 23:58:17,509 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 23:58:17,509 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 23:58:17,510 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 23:58:17,510 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 23:58:17,510 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@3f6f6701 - End of configuration. [testng] 23:58:17,511 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@4f80542f - Registering current configuration as safe fallback point [testng] 23:58:17,511 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 197 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-03-16 23:58:17,520] [main] java.version = 17.0.2 [testng] 23:58:17,523 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 23:58:17,523 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 23:58:17,563 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-03-16_23-58-17.log] [testng] 23:58:17,565 |-INFO in ch.qos.logback.core.sift.SiftProcessor@14bdbc74 - End of configuration. [testng] [2025-03-16 23:58:17,567] [main] testng.directory = /data [testng] [2025-03-16 23:58:17,567] [main] testng.configDirectory = /config [testng] [2025-03-16 23:58:17,576] [main] testng.multiplier = 1.0 [testng] [2025-03-16 23:58:17,577] [main] testng.in-memory = false [testng] [2025-03-16 23:58:17,577] [main] testng.allow-missing = false [testng] [2025-03-16 23:58:17,577] [main] user.language = en [testng] [2025-03-16 23:58:17,577] [main] user.country = ${user.country} [testng] [2025-03-16 23:58:17,577] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2025-03-16 23:58:27,085] [main] ---------------------------------------- [testng] [2025-03-16 23:58:27,085] [main] Total files: 22 [testng] [2025-03-16 23:58:27,086] [main] Scan time: 9.508 s (432 ms/file) [testng] [2025-03-16 23:58:27,086] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 21 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-03-16 23:59:03,461] [pool-1-thread-1] Initializing /data/converted/mitosis-test.seq: [testng] 23:59:03,461 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 23:59:03,462 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 23:59:03,462 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-03-16_23-59-03.log] [testng] 23:59:03,463 |-INFO in ch.qos.logback.core.sift.SiftProcessor@20cc8bcd - End of configuration. [testng] [2025-03-16 23:59:04,747] [pool-1-thread-12] Initializing /data/alex/AFAset0003.ips: [testng] 23:59:04,747 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 23:59:04,747 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 23:59:04,748 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-03-16_23-59-04.log] [testng] 23:59:04,749 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2218b4e0 - End of configuration. [testng] [2025-03-16 23:59:05,985] [pool-1-thread-11] Initializing /data/samples/TISSUE.TIF: [testng] 23:59:05,986 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 23:59:05,986 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 23:59:05,986 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-03-16_23-59-05.log] [testng] 23:59:05,987 |-INFO in ch.qos.logback.core.sift.SiftProcessor@51ee79a3 - End of configuration. [testng] [2025-03-16 23:59:09,623] [pool-1-thread-10] Initializing /data/converted/clown8c.tif: [testng] 23:59:09,623 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 23:59:09,623 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 23:59:09,624 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-03-16_23-59-09.log] [testng] 23:59:09,624 |-INFO in ch.qos.logback.core.sift.SiftProcessor@170e8565 - End of configuration. [testng] [2025-03-16 23:59:12,279] [pool-1-thread-9] Initializing /data/converted/NESb_C2_TP7.tiff: [testng] 23:59:12,279 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 23:59:12,279 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 23:59:12,280 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-03-16_23-59-12.log] [testng] 23:59:12,280 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2006e323 - End of configuration. [testng] [2025-03-16 23:59:14,923] [pool-1-thread-8] Initializing /data/converted/NESb_C2_TP7.ipw: [testng] 23:59:14,923 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 23:59:14,923 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 23:59:14,924 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-03-16_23-59-14.log] [testng] 23:59:14,925 |-INFO in ch.qos.logback.core.sift.SiftProcessor@26b86d93 - End of configuration. [testng] [2025-03-16 23:59:15,995] [pool-1-thread-7] Initializing /data/converted/clown8c.ipw: [testng] 23:59:15,995 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 23:59:15,995 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 23:59:15,996 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-03-16_23-59-15.log] [testng] 23:59:15,996 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3da10a4e - End of configuration. [testng] [2025-03-16 23:59:17,009] [pool-1-thread-6] Initializing /data/xiuwen/head2.seq: [testng] 23:59:17,010 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 23:59:17,010 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 23:59:17,010 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-03-16_23-59-17.log] [testng] 23:59:17,011 |-INFO in ch.qos.logback.core.sift.SiftProcessor@a13c7 - End of configuration. [testng] [2025-03-16 23:59:18,079] [pool-1-thread-5] Initializing /data/converted/dub01.seq: [testng] 23:59:18,080 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 23:59:18,080 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 23:59:18,080 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-03-16_23-59-18.log] [testng] 23:59:18,081 |-INFO in ch.qos.logback.core.sift.SiftProcessor@250475be - End of configuration. [testng] [2025-03-16 23:59:19,792] [pool-1-thread-4] Initializing /data/converted/clown.seq: [testng] 23:59:19,792 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 23:59:19,792 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 23:59:19,793 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-03-16_23-59-19.log] [testng] 23:59:19,793 |-INFO in ch.qos.logback.core.sift.SiftProcessor@32147c9b - End of configuration. [testng] [2025-03-16 23:59:21,228] [pool-1-thread-3] Initializing /data/converted/clown.ipw: [testng] 23:59:21,229 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 23:59:21,229 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 23:59:21,229 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-03-16_23-59-21.log] [testng] 23:59:21,230 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1e883dad - End of configuration. [testng] [2025-03-16 23:59:22,657] [pool-1-thread-2] Initializing /data/converted/clown8c.seq: [testng] 23:59:22,658 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 23:59:22,658 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 23:59:22,659 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-03-16_23-59-22.log] [testng] 23:59:22,659 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4ee9d2a9 - End of configuration. [testng] [2025-03-16 23:59:40,419] [pool-1-thread-7] Initializing /data/samples/PROBE.TIF: [testng] [2025-03-16 23:59:42,721] [pool-1-thread-3] Initializing /data/converted/dub01.pic: [testng] [2025-03-16 23:59:44,552] [pool-1-thread-2] Initializing /data/converted/mitosis-test.tif: [testng] [2025-03-16 23:59:49,020] [pool-1-thread-5] Initializing /data/samples/HEART.SEQ: [testng] [2025-03-16 23:59:50,767] [pool-1-thread-4] Initializing /data/converted/dub01.ipw: [testng] [2025-03-16 23:59:52,214] [pool-1-thread-1] Initializing /data/converted/clown.tif: [testng] [2025-03-16 23:59:53,732] [pool-1-thread-8] Initializing /data/converted/mitosis-test.ipw: [testng] [2025-03-16 23:59:55,176] [pool-1-thread-6] Initializing /data/converted/NESb_C2_TP7.seq: [testng] [2025-03-17 00:00:07,950] [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: 10 minutes 31 seconds Finished: SUCCESS