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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 [BIOFORMATS-test-folder] $ /bin/bash -xe /tmp/jenkins2465661602636532445.sh + '[' cellomics = slidebook ']' ++ date +%u + '[' 7 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_60166_merge_ci -v /uod/idr/repos/curated/cellomics:/data -v /uod/idr-scratch/merge-ci/curated/cellomics:/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] 08:01:03,612 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15 [testng] 08:01:03,613 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - No custom configurators were discovered as a service. [testng] 08:01:03,613 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 08:01:03,614 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 08:01:03,614 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 08:01:03,614 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 08:01:03,615 |-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] 08:01:03,615 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 08:01:03,615 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 08:01:03,616 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 08:01:03,616 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 08:01:03,616 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 08:01:03,776 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 08:01:03,776 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 08:01:03,798 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 08:01:03,798 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 08:01:03,804 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 08:01:03,804 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 08:01:03,804 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 08:01:03,804 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 08:01:03,805 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@3f6f6701 - End of configuration. [testng] 08:01:03,805 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@4f80542f - Registering current configuration as safe fallback point [testng] 08:01:03,805 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 190 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-03-16 08:01:03,814] [main] java.version = 17.0.2 [testng] 08:01:03,817 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 08:01:03,817 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:01:03,856 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-03-16_08-01-03.log] [testng] 08:01:03,857 |-INFO in ch.qos.logback.core.sift.SiftProcessor@14bdbc74 - End of configuration. [testng] [2025-03-16 08:01:03,859] [main] testng.directory = /data [testng] [2025-03-16 08:01:03,859] [main] testng.configDirectory = /config [testng] [2025-03-16 08:01:03,868] [main] testng.multiplier = 1.0 [testng] [2025-03-16 08:01:03,869] [main] testng.in-memory = false [testng] [2025-03-16 08:01:03,869] [main] testng.allow-missing = false [testng] [2025-03-16 08:01:03,869] [main] user.language = en [testng] [2025-03-16 08:01:03,869] [main] user.country = ${user.country} [testng] [2025-03-16 08:01:03,869] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2025-03-16 08:03:32,918] [main] ---------------------------------------- [testng] [2025-03-16 08:03:32,918] [main] Total files: 2539 [testng] [2025-03-16 08:03:32,919] [main] Scan time: 149.049 s (58 ms/file) [testng] [2025-03-16 08:03:32,919] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 17 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-03-16 08:06:30,379] [pool-1-thread-1] Initializing /data/harri/MFGTMP-PC_111018140003/MFGTMP-PC_111018140003_E04f00d0.C01: [testng] 08:06:30,379 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 08:06:30,379 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:06:30,381 |-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_08-06-30.log] [testng] 08:06:30,381 |-INFO in ch.qos.logback.core.sift.SiftProcessor@64b17ef8 - End of configuration. [testng] [2025-03-16 08:06:33,432] [pool-1-thread-12] Initializing /data/johannes/MFGTMP_081222130005_E07f00d0.C01: [testng] 08:06:33,433 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 08:06:33,433 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:06:33,433 |-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_08-06-33.log] [testng] 08:06:33,434 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5e8a4f - End of configuration. [testng] [2025-03-16 08:06:36,266] [pool-1-thread-11] Initializing /data/samples/sparse-plate/plate_E03f00d0.C01: [testng] 08:06:36,266 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 08:06:36,266 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:06:36,267 |-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_08-06-36.log] [testng] 08:06:36,267 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5f50f29e - End of configuration. [testng] [2025-03-16 08:06:38,503] [pool-1-thread-10] Initializing /data/omar/FB03f00o2.C01: [testng] 08:06:38,503 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 08:06:38,503 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:06:38,504 |-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_08-06-38.log] [testng] 08:06:38,504 |-INFO in ch.qos.logback.core.sift.SiftProcessor@625b1366 - End of configuration. [testng] [2025-03-16 08:06:41,029] [pool-1-thread-9] Initializing /data/omar/FB03f00d0.C01: [testng] 08:06:41,029 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 08:06:41,029 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:06:41,030 |-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_08-06-41.log] [testng] 08:06:41,030 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3eb47eab - End of configuration. [testng] [2025-03-16 08:06:43,415] [pool-1-thread-8] Initializing /data/qa-21720/AS_09125_050117190001_A14f00d0.DIB: [testng] 08:06:43,415 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 08:06:43,415 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:06:43,416 |-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_08-06-43.log] [testng] 08:06:43,416 |-INFO in ch.qos.logback.core.sift.SiftProcessor@15042d07 - End of configuration. [testng] [2025-03-16 08:06:46,266] [pool-1-thread-7] Initializing /data/omar/FB03f00d1.C01: [testng] 08:06:46,266 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 08:06:46,266 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:06:46,267 |-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_08-06-46.log] [testng] 08:06:46,267 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1690e87e - End of configuration. [testng] [2025-03-16 08:06:49,401] [pool-1-thread-6] Initializing /data/lee/icd002235_090127090001_a01f00d1.c01: [testng] 08:06:49,401 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 08:06:49,401 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:06:49,402 |-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_08-06-49.log] [testng] 08:06:49,402 |-INFO in ch.qos.logback.core.sift.SiftProcessor@e10125b - End of configuration. [testng] [2025-03-16 08:06:52,250] [pool-1-thread-5] Initializing /data/public/BBBC001/AS_09125_050118150001_A03f00d0.DIB: [testng] 08:06:52,250 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 08:06:52,250 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:06:52,251 |-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_08-06-52.log] [testng] 08:06:52,251 |-INFO in ch.qos.logback.core.sift.SiftProcessor@72df112a - End of configuration. [testng] [2025-03-16 08:06:55,076] [pool-1-thread-4] Initializing /data/lee/AS_09125_050116030001_D03f00d0.DIB: [testng] 08:06:55,076 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 08:06:55,076 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:06:55,077 |-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_08-06-55.log] [testng] 08:06:55,077 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4c7bde09 - End of configuration. [testng] [2025-03-16 08:06:58,555] [pool-1-thread-3] Initializing /data/qa-7352/test/MFGTMP-PC_130509120002_B02f00d0.C01: [testng] 08:06:58,556 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 08:06:58,556 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:06:58,556 |-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_08-06-58.log] [testng] 08:06:58,557 |-INFO in ch.qos.logback.core.sift.SiftProcessor@59c48302 - End of configuration. [testng] [2025-03-16 08:07:01,727] [pool-1-thread-2] Initializing /data/qa-7352/test/MFGTMP-PC_130509120002_B02f00o1.C01: [testng] 08:07:01,728 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 08:07:01,728 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:07:01,728 |-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_08-07-01.log] [testng] 08:07:01,729 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1b31582d - End of configuration. [testng] [2025-03-16 08:07:26,101] [pool-1-thread-4] Initializing /data/johannes/MFGTMP_081128200001_A02f239d1.C01: [testng] [2025-03-16 08:07:47,363] [pool-1-thread-6] Initializing /data/omar/FB03f00o1.C01: [testng] [2025-03-16 08:07:50,497] [pool-1-thread-12] Initializing /data/omar/FB03f03o2.DIB: [testng] [2025-03-16 08:07:53,449] [pool-1-thread-7] Initializing /data/samples/plate-size/plate_B03f00d0.C01: [testng] [2025-03-16 08:07:56,963] [pool-1-thread-9] Initializing /data/samples/different-field-count/plate_B03f00d0.C01: [testng] 09:51:10,498 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 09:51:10,498 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:51:10,499 |-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_09-51-10.log] [testng] 09:51:10,499 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5f76f49d - End of configuration. [testng] 10:37:49,126 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 10:37:49,126 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:37:49,129 |-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_10-37-49.log] [testng] 10:37:49,129 |-INFO in ch.qos.logback.core.sift.SiftProcessor@55fb9dd8 - End of configuration. [testng] 10:43:08,397 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 10:43:08,397 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:43:08,398 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-03-16_10-43-08.log] [testng] 10:43:08,399 |-INFO in ch.qos.logback.core.sift.SiftProcessor@235d29d6 - End of configuration. [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 901, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 162 minutes 9 seconds Finished: SUCCESS