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Started by upstream project "BIOFORMATS-test-repo" build number 227 originally caused by: Started by upstream project "Trigger" build number 252 originally caused by: Started by user devspace Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@5 [BIOFORMATS-test-folder@5] $ /bin/bash -xe /tmp/jenkins7239462790483862522.sh + '[' imagepro = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_35701_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 test-automated: [testng] File leak detector installed [testng] 13:08:30,502 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 13:08:30,504 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 13:08:30,504 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 13:08:30,505 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 13:08:30,505 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 13:08:30,505 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 13:08:30,505 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 0 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 13:08:30,505 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 13:08:30,506 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 13:08:30,506 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 13:08:30,506 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 13:08:30,506 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 13:08:30,723 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 13:08:30,723 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 13:08:30,748 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 13:08:30,748 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 13:08:30,757 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 13:08:30,757 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 13:08:30,757 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 13:08:30,757 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 13:08:30,757 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 13:08:30,758 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 13:08:30,758 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 252 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-10-18 13:08:30,768] [main] java.version = 1.8.0_342 [testng] 13:08:30,771 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 13:08:30,771 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:08:30,815 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-18_13-08-30.log] [testng] 13:08:30,817 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2024-10-18 13:08:30,818] [main] testng.directory = /data [testng] [2024-10-18 13:08:30,819] [main] testng.configDirectory = /config [testng] [2024-10-18 13:08:30,830] [main] testng.multiplier = 1.0 [testng] [2024-10-18 13:08:30,830] [main] testng.in-memory = false [testng] [2024-10-18 13:08:30,830] [main] testng.allow-missing = false [testng] [2024-10-18 13:08:30,830] [main] user.language = en [testng] [2024-10-18 13:08:30,830] [main] user.country = ${user.country} [testng] [2024-10-18 13:08:30,830] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-10-18 13:08:34,330] [main] ---------------------------------------- [testng] [2024-10-18 13:08:34,331] [main] Total files: 22 [testng] [2024-10-18 13:08:34,331] [main] Scan time: 3.5 s (159 ms/file) [testng] [2024-10-18 13:08:34,331] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 21 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-10-18 13:08:49,893] [pool-1-thread-1] Initializing /data/converted/NESb_C2_TP7.seq: [testng] 13:08:49,894 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 13:08:49,894 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:08:49,895 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-18_13-08-49.log] [testng] 13:08:49,896 |-INFO in ch.qos.logback.core.sift.SiftProcessor@712aad8 - End of configuration. [testng] [2024-10-18 13:08:50,252] [pool-1-thread-12] Initializing /data/converted/clown8c.tif: [testng] 13:08:50,252 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 13:08:50,252 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:08:50,253 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-10-18_13-08-50.log] [testng] 13:08:50,253 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6d6a9bd1 - End of configuration. [testng] [2024-10-18 13:08:51,057] [pool-1-thread-11] Initializing /data/samples/TISSUE.TIF: [testng] 13:08:51,057 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 13:08:51,057 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:08:51,058 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-10-18_13-08-51.log] [testng] 13:08:51,058 |-INFO in ch.qos.logback.core.sift.SiftProcessor@60dce90e - End of configuration. [testng] [2024-10-18 13:08:51,880] [pool-1-thread-10] Initializing /data/converted/dub01.seq: [testng] 13:08:51,880 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 13:08:51,880 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:08:51,881 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-18_13-08-51.log] [testng] 13:08:51,882 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4243b70b - End of configuration. [testng] [2024-10-18 13:08:52,245] [pool-1-thread-9] Initializing /data/xiuwen/head2.seq: [testng] 13:08:52,245 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 13:08:52,246 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:08:52,246 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-18_13-08-52.log] [testng] 13:08:52,247 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13a4d123 - End of configuration. [testng] [2024-10-18 13:08:52,660] [pool-1-thread-8] Initializing /data/samples/PROBE.TIF: [testng] 13:08:52,661 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 13:08:52,661 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:08:52,661 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-18_13-08-52.log] [testng] 13:08:52,662 |-INFO in ch.qos.logback.core.sift.SiftProcessor@62a25055 - End of configuration. [testng] [2024-10-18 13:08:53,053] [pool-1-thread-7] Initializing /data/converted/clown.ipw: [testng] 13:08:53,054 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 13:08:53,054 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:08:53,054 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-18_13-08-53.log] [testng] 13:08:53,055 |-INFO in ch.qos.logback.core.sift.SiftProcessor@71647c70 - End of configuration. [testng] [2024-10-18 13:08:53,428] [pool-1-thread-6] Initializing /data/samples/HEART.SEQ: [testng] 13:08:53,428 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 13:08:53,428 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:08:53,429 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-18_13-08-53.log] [testng] 13:08:53,429 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4a77b19b - End of configuration. [testng] [2024-10-18 13:08:53,775] [pool-1-thread-5] Initializing /data/converted/mitosis-test.seq: [testng] 13:08:53,775 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 13:08:53,775 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:08:53,775 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-18_13-08-53.log] [testng] 13:08:53,776 |-INFO in ch.qos.logback.core.sift.SiftProcessor@67fa7740 - End of configuration. [testng] [2024-10-18 13:08:54,131] [pool-1-thread-4] Initializing /data/converted/NESb_C2_TP7.ipw: [testng] 13:08:54,131 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 13:08:54,131 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:08:54,132 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-18_13-08-54.log] [testng] 13:08:54,132 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4392289a - End of configuration. [testng] [2024-10-18 13:08:54,477] [pool-1-thread-3] Initializing /data/converted/mitosis-test.tif: [testng] 13:08:54,477 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 13:08:54,477 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:08:54,478 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-18_13-08-54.log] [testng] 13:08:54,478 |-INFO in ch.qos.logback.core.sift.SiftProcessor@14e0c38d - End of configuration. [testng] [2024-10-18 13:08:55,371] [pool-1-thread-2] Initializing /data/converted/clown.tif: [testng] 13:08:55,371 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 13:08:55,371 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:08:55,372 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-18_13-08-55.log] [testng] 13:08:55,372 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5c3513bc - End of configuration. [testng] [2024-10-18 13:08:59,806] [pool-1-thread-7] Initializing /data/converted/clown.seq: [testng] [2024-10-18 13:09:00,163] [pool-1-thread-8] Initializing /data/converted/clown8c.seq: [testng] [2024-10-18 13:09:00,569] [pool-1-thread-2] Initializing /data/converted/dub01.ipw: [testng] [2024-10-18 13:09:00,911] [pool-1-thread-6] Initializing /data/alex/AFAset0003.ips: [testng] [2024-10-18 13:09:01,256] [pool-1-thread-5] Initializing /data/converted/dub01.pic: [testng] [2024-10-18 13:09:01,607] [pool-1-thread-10] Initializing /data/converted/clown8c.ipw: [testng] [2024-10-18 13:09:01,968] [pool-1-thread-4] Initializing /data/converted/NESb_C2_TP7.tiff: [testng] [2024-10-18 13:09:02,828] [pool-1-thread-1] Initializing /data/converted/mitosis-test.ipw: [testng] [2024-10-18 13:09:03,939] [pool-1-thread-12] 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: 2 minutes 31 seconds Finished: SUCCESS