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Started by upstream project "BIOFORMATS-test-repo" build number 268 originally caused by: Started by upstream project "Trigger" build number 291 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/jenkins4769558455629804424.sh + '[' cellomics = slidebook ']' ++ date +%u + '[' 2 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_42372_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] WARNING: An illegal reflective access operation has occurred [testng] WARNING: Illegal reflective access by org.kohsuke.file_leak_detector.Listener (file:/home/build/.m2/repository/org/kohsuke/file-leak-detector/1.18/file-leak-detector-1.18-jar-with-dependencies.jar) to field java.net.SocketImpl.socket [testng] WARNING: Please consider reporting this to the maintainers of org.kohsuke.file_leak_detector.Listener [testng] WARNING: Use --illegal-access=warn to enable warnings of further illegal reflective access operations [testng] WARNING: All illegal access operations will be denied in a future release [testng] File leak detector installed [testng] 10:18:27,043 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 10:18:27,045 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - No custom configurators were discovered as a service. [testng] 10:18:27,045 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 10:18:27,045 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 10:18:27,046 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 10:18:27,046 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 10:18:27,047 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 2 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 10:18:27,047 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 10:18:27,047 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 10:18:27,048 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 10:18:27,048 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 10:18:27,048 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 10:18:27,209 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 10:18:27,209 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 10:18:27,230 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 10:18:27,230 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 10:18:27,236 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 10:18:27,236 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 10:18:27,236 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 10:18:27,236 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 10:18:27,236 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@45099dd3 - End of configuration. [testng] 10:18:27,237 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@60099951 - Registering current configuration as safe fallback point [testng] 10:18:27,237 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 190 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-11-26 10:18:27,245] [main] java.version = 11.0.16 [testng] 10:18:27,248 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 10:18:27,248 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:18:27,289 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-26_10-18-27.log] [testng] 10:18:27,290 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21be3395 - End of configuration. [testng] [2024-11-26 10:18:27,292] [main] testng.directory = /data [testng] [2024-11-26 10:18:27,292] [main] testng.configDirectory = /config [testng] [2024-11-26 10:18:27,302] [main] testng.multiplier = 1.0 [testng] [2024-11-26 10:18:27,303] [main] testng.in-memory = false [testng] [2024-11-26 10:18:27,303] [main] testng.allow-missing = false [testng] [2024-11-26 10:18:27,303] [main] user.language = en [testng] [2024-11-26 10:18:27,303] [main] user.country = ${user.country} [testng] [2024-11-26 10:18:27,303] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-11-26 10:19:13,413] [main] ---------------------------------------- [testng] [2024-11-26 10:19:13,414] [main] Total files: 2539 [testng] [2024-11-26 10:19:13,414] [main] Scan time: 46.11 s (18 ms/file) [testng] [2024-11-26 10:19:13,414] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 17 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-11-26 10:20:05,018] [pool-1-thread-1] Initializing /data/harri/MFGTMP-PC_111018140003/MFGTMP-PC_111018140003_E04f00d0.C01: [testng] 10:20:05,019 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 10:20:05,019 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:20:05,021 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-11-26_10-20-05.log] [testng] 10:20:05,021 |-INFO in ch.qos.logback.core.sift.SiftProcessor@efd0951 - End of configuration. [testng] [2024-11-26 10:20:05,867] [pool-1-thread-12] Initializing /data/omar/FB03f00o1.C01: [testng] 10:20:05,867 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 10:20:05,867 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:20:05,868 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-11-26_10-20-05.log] [testng] 10:20:05,868 |-INFO in ch.qos.logback.core.sift.SiftProcessor@cc9aa5c - End of configuration. [testng] [2024-11-26 10:20:06,519] [pool-1-thread-11] Initializing /data/samples/different-field-count/plate_B03f00d0.C01: [testng] 10:20:06,520 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 10:20:06,520 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:20:06,520 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-11-26_10-20-06.log] [testng] 10:20:06,521 |-INFO in ch.qos.logback.core.sift.SiftProcessor@672f5e72 - End of configuration. [testng] [2024-11-26 10:20:07,208] [pool-1-thread-10] Initializing /data/qa-7352/test/MFGTMP-PC_130509120002_B02f00o1.C01: [testng] 10:20:07,208 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 10:20:07,209 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:20:07,209 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-11-26_10-20-07.log] [testng] 10:20:07,209 |-INFO in ch.qos.logback.core.sift.SiftProcessor@41f18001 - End of configuration. [testng] [2024-11-26 10:20:07,986] [pool-1-thread-9] Initializing /data/qa-21720/AS_09125_050117190001_A14f00d0.DIB: [testng] 10:20:07,986 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 10:20:07,986 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:20:07,987 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-11-26_10-20-07.log] [testng] 10:20:07,987 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6aac9b73 - End of configuration. [testng] [2024-11-26 10:20:08,726] [pool-1-thread-8] Initializing /data/omar/FB03f00o2.C01: [testng] 10:20:08,726 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 10:20:08,726 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:20:08,727 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-11-26_10-20-08.log] [testng] 10:20:08,727 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6d08362d - End of configuration. [testng] [2024-11-26 10:20:09,414] [pool-1-thread-7] Initializing /data/johannes/MFGTMP_081128200001_A02f239d1.C01: [testng] 10:20:09,414 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 10:20:09,415 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:20:09,415 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-11-26_10-20-09.log] [testng] 10:20:09,415 |-INFO in ch.qos.logback.core.sift.SiftProcessor@49f800c0 - End of configuration. [testng] [2024-11-26 10:20:10,201] [pool-1-thread-6] Initializing /data/samples/sparse-plate/plate_E03f00d0.C01: [testng] 10:20:10,201 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 10:20:10,201 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:20:10,202 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-11-26_10-20-10.log] [testng] 10:20:10,202 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5034a93b - End of configuration. [testng] [2024-11-26 10:20:10,981] [pool-1-thread-5] Initializing /data/qa-7352/test/MFGTMP-PC_130509120002_B02f00d0.C01: [testng] 10:20:10,981 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 10:20:10,981 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:20:10,982 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-11-26_10-20-10.log] [testng] 10:20:10,982 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7ff169c6 - End of configuration. [testng] [2024-11-26 10:20:11,744] [pool-1-thread-4] Initializing /data/lee/AS_09125_050116030001_D03f00d0.DIB: [testng] 10:20:11,744 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 10:20:11,744 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:20:11,745 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-11-26_10-20-11.log] [testng] 10:20:11,745 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7737260d - End of configuration. [testng] [2024-11-26 10:20:12,542] [pool-1-thread-3] Initializing /data/omar/FB03f00d1.C01: [testng] 10:20:12,543 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 10:20:12,543 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:20:12,543 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-11-26_10-20-12.log] [testng] 10:20:12,544 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5a4a3984 - End of configuration. [testng] [2024-11-26 10:20:13,246] [pool-1-thread-2] Initializing /data/lee/icd002235_090127090001_a01f00d1.c01: [testng] 10:20:13,246 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 10:20:13,246 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:20:13,246 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-11-26_10-20-13.log] [testng] 10:20:13,247 |-INFO in ch.qos.logback.core.sift.SiftProcessor@28a38845 - End of configuration. [testng] [2024-11-26 10:20:20,392] [pool-1-thread-4] Initializing /data/omar/FB03f00d0.C01: [testng] [2024-11-26 10:20:26,046] [pool-1-thread-2] Initializing /data/public/BBBC001/AS_09125_050118150001_A03f00d0.DIB: [testng] [2024-11-26 10:20:27,034] [pool-1-thread-12] Initializing /data/omar/FB03f03o2.DIB: [testng] [2024-11-26 10:20:27,821] [pool-1-thread-7] Initializing /data/johannes/MFGTMP_081222130005_E07f00d0.C01: [testng] [2024-11-26 10:20:28,669] [pool-1-thread-3] Initializing /data/samples/plate-size/plate_B03f00d0.C01: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 901, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 50 minutes 57 seconds Finished: SUCCESS