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Started by upstream project "BIOFORMATS-test-repo" build number 245 originally caused by: Started by upstream project "Trigger" build number 269 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@9 [BIOFORMATS-test-folder@9] $ /bin/bash -xe /tmp/jenkins8161400725331345554.sh + '[' obf = slidebook ']' ++ date +%u + '[' 1 -le 1 ']' + DOCKER_ARGS='-Dtestng.memory=15g -Dtestng.threadCount=12 -Duser.language=fr -Duser.country=FR' + sudo docker run --rm --name BIOFORMATS-test-folder_38648_merge_ci -v /uod/idr/repos/curated/obf:/data -v /uod/idr-scratch/merge-ci/curated/obf:/config snoopycrimecop/bioformats:merge_ci -Dtestng.memory=15g -Dtestng.threadCount=12 -Duser.language=fr -Duser.country=FR 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] 14:35:54,129 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 14:35:54,131 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 14:35:54,131 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 14:35:54,132 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 14:35:54,132 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 14:35:54,132 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 14:35:54,133 |-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] 14:35:54,133 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 14:35:54,133 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 14:35:54,133 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 14:35:54,133 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 14:35:54,133 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 14:35:54,346 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 14:35:54,346 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 14:35:54,372 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 14:35:54,373 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 14:35:54,380 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 14:35:54,380 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 14:35:54,381 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 14:35:54,381 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 14:35:54,381 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 14:35:54,382 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 14:35:54,382 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 249 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-11-04 14:35:54,391] [main] java.version = 1.8.0_342 [testng] 14:35:54,395 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 14:35:54,395 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:35:54,438 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-04_14-35-54.log] [testng] 14:35:54,439 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2024-11-04 14:35:54,441] [main] testng.directory = /data [testng] [2024-11-04 14:35:54,441] [main] testng.configDirectory = /config [testng] [2024-11-04 14:35:54,453] [main] testng.multiplier = 1.0 [testng] [2024-11-04 14:35:54,453] [main] testng.in-memory = false [testng] [2024-11-04 14:35:54,453] [main] testng.allow-missing = false [testng] [2024-11-04 14:35:54,454] [main] user.language = fr [testng] [2024-11-04 14:35:54,454] [main] user.country = FR [testng] [2024-11-04 14:35:54,454] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-11-04 14:36:40,887] [main] ---------------------------------------- [testng] [2024-11-04 14:36:40,887] [main] Total files: 12 [testng] [2024-11-04 14:36:40,887] [main] Scan time: 46.433 s (3869 ms/file) [testng] [2024-11-04 14:36:40,887] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 11 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-11-04 14:37:30,507] [pool-1-thread-1] Initializing /data/tristan/Example_Chrimson_Beads_40nm.msr: [testng] 14:37:30,507 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 14:37:30,507 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:37:30,508 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-11-04_14-37-30.log] [testng] 14:37:30,508 |-INFO in ch.qos.logback.core.sift.SiftProcessor@481c62c7 - End of configuration. [testng] [2024-11-04 14:37:34,862] [pool-1-thread-11] Initializing /data/qa-17111/before 1.msr: [testng] 14:37:34,862 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 14:37:34,862 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:37:34,863 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-11-04_14-37-34.log] [testng] 14:37:34,863 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13ce7262 - End of configuration. [testng] [2024-11-04 14:37:38,877] [pool-1-thread-10] Initializing /data/public/ngladitz/v6/test-v6-short-write.obf: [testng] 14:37:38,878 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 14:37:38,878 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:37:38,879 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-11-04_14-37-38.log] [testng] 14:37:38,879 |-INFO in ch.qos.logback.core.sift.SiftProcessor@25ddfaa - End of configuration. [testng] [2024-11-04 14:37:42,312] [pool-1-thread-9] Initializing /data/qa-16895/Measurement1.msr: [testng] 14:37:42,312 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 14:37:42,312 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:37:42,313 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-11-04_14-37-42.log] [testng] 14:37:42,313 |-INFO in ch.qos.logback.core.sift.SiftProcessor@416fd564 - End of configuration. [testng] [2024-11-04 14:37:46,353] [pool-1-thread-8] Initializing /data/public/ngladitz/v6/test-v6.obf: [testng] 14:37:46,353 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 14:37:46,353 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:37:46,354 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-11-04_14-37-46.log] [testng] 14:37:46,354 |-INFO in ch.qos.logback.core.sift.SiftProcessor@706a6e69 - End of configuration. [testng] [2024-11-04 14:37:50,698] [pool-1-thread-7] Initializing /data/qa-27923/test.obf: [testng] 14:37:50,698 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 14:37:50,698 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:37:50,699 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-11-04_14-37-50.log] [testng] 14:37:50,699 |-INFO in ch.qos.logback.core.sift.SiftProcessor@700cd068 - End of configuration. [testng] [2024-11-04 14:37:54,622] [pool-1-thread-6] Initializing /data/bjoernthiel/20191106__zstack.msr: [testng] 14:37:54,622 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 14:37:54,622 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:37:54,622 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-11-04_14-37-54.log] [testng] 14:37:54,623 |-INFO in ch.qos.logback.core.sift.SiftProcessor@53572b84 - End of configuration. [testng] [2024-11-04 14:37:58,536] [pool-1-thread-5] Initializing /data/zoltan/3D-CONFOCAL-PSF-235nm.msr: [testng] 14:37:58,536 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 14:37:58,536 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:37:58,537 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-11-04_14-37-58.log] [testng] 14:37:58,537 |-INFO in ch.qos.logback.core.sift.SiftProcessor@654d5b90 - End of configuration. [testng] [2024-11-04 14:38:01,932] [pool-1-thread-4] Initializing /data/public/ngladitz/v6/test-v6-uncompressed.obf: [testng] 14:38:01,932 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 14:38:01,932 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:38:01,933 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-11-04_14-38-01.log] [testng] 14:38:01,933 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7d4b7aa5 - End of configuration. [testng] [2024-11-04 14:38:06,250] [pool-1-thread-3] Initializing /data/public/ngladitz/v4/test-v4.obf: [testng] 14:38:06,251 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 14:38:06,251 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:38:06,251 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-11-04_14-38-06.log] [testng] 14:38:06,252 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1e96eff3 - End of configuration. [testng] [2024-11-04 14:38:10,253] [pool-1-thread-2] Initializing /data/public/ngladitz/v4/test-v4-uncompressed.obf: [testng] 14:38:10,253 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 14:38:10,253 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:38:10,254 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-11-04_14-38-10.log] [testng] 14:38:10,254 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3979d2b8 - End of configuration. [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 583, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 3 minutes 19 seconds Finished: SUCCESS