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Started by upstream project "BIOFORMATS-test-repo" build number 220 originally caused by: Started by upstream project "Trigger" build number 247 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@4 [BIOFORMATS-test-folder@4] $ /bin/bash -xe /tmp/jenkins13349744945281093145.sh + '[' leica-tcs = 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_35003_merge_ci -v /uod/idr/repos/curated/leica-tcs:/data -v /uod/idr-scratch/merge-ci/curated/leica-tcs:/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] 05:43:03,752 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 05:43:03,753 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 05:43:03,754 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 05:43:03,755 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 05:43:03,755 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 05:43:03,755 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 05:43:03,755 |-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] 05:43:03,755 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 05:43:03,756 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 05:43:03,756 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 05:43:03,756 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 05:43:03,756 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 05:43:03,973 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 05:43:03,973 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 05:43:04,000 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 05:43:04,000 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 05:43:04,007 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 05:43:04,007 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 05:43:04,008 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 05:43:04,008 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 05:43:04,008 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 05:43:04,009 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 05:43:04,009 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 253 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-10-14 05:43:04,018] [main] java.version = 1.8.0_342 [testng] 05:43:04,021 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 05:43:04,022 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:43:04,066 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-14_05-43-04.log] [testng] 05:43:04,067 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2024-10-14 05:43:04,069] [main] testng.directory = /data [testng] [2024-10-14 05:43:04,069] [main] testng.configDirectory = /config [testng] [2024-10-14 05:43:04,081] [main] testng.multiplier = 1.0 [testng] [2024-10-14 05:43:04,081] [main] testng.in-memory = false [testng] [2024-10-14 05:43:04,081] [main] testng.allow-missing = false [testng] [2024-10-14 05:43:04,081] [main] user.language = fr [testng] [2024-10-14 05:43:04,081] [main] user.country = FR [testng] [2024-10-14 05:43:04,081] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-10-14 05:43:45,735] [main] ---------------------------------------- [testng] [2024-10-14 05:43:45,735] [main] Total files: 944 [testng] [2024-10-14 05:43:45,735] [main] Scan time: 41.654 s (44 ms/file) [testng] [2024-10-14 05:43:45,735] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 15 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-10-14 05:45:57,135] [pool-1-thread-1] Initializing /data/stjude/AntoDay4dblcatdataGRP.tif: [testng] 05:45:57,135 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 05:45:57,135 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:45:57,136 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-14_05-45-57.log] [testng] 05:45:57,136 |-INFO in ch.qos.logback.core.sift.SiftProcessor@67e7a049 - End of configuration. [testng] [2024-10-14 05:46:01,864] [pool-1-thread-12] Initializing /data/stjude/Antoday1dblmysglGRP.tif: [testng] 05:46:01,865 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 05:46:01,865 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:46:01,865 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-10-14_05-46-01.log] [testng] 05:46:01,866 |-INFO in ch.qos.logback.core.sift.SiftProcessor@50473109 - End of configuration. [testng] [2024-10-14 05:46:03,536] [pool-1-thread-11] Initializing /data/stjude/AntoDay4dblmyGRP.tif: [testng] 05:46:03,537 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 05:46:03,537 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:46:03,537 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-10-14_05-46-03.log] [testng] 05:46:03,538 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4c12a258 - End of configuration. [testng] [2024-10-14 05:46:05,158] [pool-1-thread-10] Initializing /data/primate/Leica_Image.tif: [testng] 05:46:05,158 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 05:46:05,158 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:46:05,159 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-14_05-46-05.log] [testng] 05:46:05,159 |-INFO in ch.qos.logback.core.sift.SiftProcessor@47fffb19 - End of configuration. [testng] [2024-10-14 05:46:06,665] [pool-1-thread-9] Initializing /data/brian/Series002_z00_ch00.tif: [testng] 05:46:06,665 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 05:46:06,666 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:46:06,666 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-14_05-46-06.log] [testng] 05:46:06,667 |-INFO in ch.qos.logback.core.sift.SiftProcessor@9dc693 - End of configuration. [testng] [2024-10-14 05:46:08,243] [pool-1-thread-8] Initializing /data/stjude/AntoDayzerocy3OVP.tif: [testng] 05:46:08,243 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 05:46:08,244 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:46:08,244 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-14_05-46-08.log] [testng] 05:46:08,245 |-INFO in ch.qos.logback.core.sift.SiftProcessor@255777b4 - End of configuration. [testng] [2024-10-14 05:46:10,094] [pool-1-thread-7] Initializing /data/stjude/AntoDay1dblGRP.tif: [testng] 05:46:10,094 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 05:46:10,094 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:46:10,095 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-14_05-46-10.log] [testng] 05:46:10,095 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6d77ab48 - End of configuration. [testng] [2024-10-14 05:46:11,739] [pool-1-thread-6] Initializing /data/stjude/AntoDayzerocy3GRP.tif: [testng] 05:46:11,739 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 05:46:11,739 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:46:11,740 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-14_05-46-11.log] [testng] 05:46:11,740 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21f65f64 - End of configuration. [testng] [2024-10-14 05:46:13,986] [pool-1-thread-5] Initializing /data/stjude/AntoDay4dblmy2GRP.tif: [testng] 05:46:13,986 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 05:46:13,986 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:46:13,987 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-14_05-46-13.log] [testng] 05:46:13,987 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4d2de57a - End of configuration. [testng] [2024-10-14 05:46:16,650] [pool-1-thread-4] Initializing /data/dave/series 35/042911_Series035_t00_z000_ch00.tif: [testng] 05:46:16,650 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 05:46:16,650 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:46:16,651 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-14_05-46-16.log] [testng] 05:46:16,651 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7ab93c5f - End of configuration. [testng] [2024-10-14 05:47:36,079] [pool-1-thread-3] Initializing /data/stjude/Antoday1dblcat2dataGRP.tif: [testng] 05:47:36,079 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 05:47:36,079 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:47:36,080 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-14_05-47-36.log] [testng] 05:47:36,080 |-INFO in ch.qos.logback.core.sift.SiftProcessor@59941479 - End of configuration. [testng] [2024-10-14 05:47:37,734] [pool-1-thread-2] Initializing /data/brian/Series002_z01.tif: [testng] 05:47:37,734 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 05:47:37,734 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:47:37,735 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-14_05-47-37.log] [testng] 05:47:37,735 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4d2e8299 - End of configuration. [testng] [2024-10-14 05:47:53,932] [pool-1-thread-10] Initializing /data/martin/Series028_z00_ch00.tif: [testng] [2024-10-14 05:48:03,036] [pool-1-thread-2] Initializing /data/stjude/Antoday1dblcatsglGRP.tif: [testng] [2024-10-14 05:48:06,500] [pool-1-thread-12] Initializing /data/stjude/AntoDay1cy3/c01f0001.TIF: [testng] 08:00:12,734 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 08:00:12,734 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:00:12,735 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-14_08-00-12.log] [testng] 08:00:12,735 |-INFO in ch.qos.logback.core.sift.SiftProcessor@25aeb5ac - End of configuration. [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 795, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 137 minutes 11 seconds Finished: SUCCESS