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Started by upstream project "BIOFORMATS-test-repo" build number 5 originally caused by: Started by upstream project "Trigger" build number 6 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/jenkins12445701477125144467.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_769_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] 02:20:37,492 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 02:20:37,494 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service. [testng] 02:20:37,494 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:20:37,495 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:20:37,495 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 02:20:37,495 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 02:20:37,496 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 0 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 02:20:37,496 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:20:37,496 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:20:37,496 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 02:20:37,496 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 02:20:37,496 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 02:20:37,762 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:20:37,762 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:20:37,794 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:20:37,794 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:20:37,803 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:20:37,803 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:20:37,803 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:20:37,804 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:20:37,804 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 02:20:37,805 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 02:20:37,805 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 309 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-03-18 02:20:37,815] [main] java.version = 1.8.0_342 [testng] 02:20:37,819 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:20:37,819 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:20:37,867 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-03-18_02-20-37.log] [testng] 02:20:37,868 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-03-18 02:20:37,871] [main] testng.directory = /data [testng] [2024-03-18 02:20:37,871] [main] testng.configDirectory = /config [testng] [2024-03-18 02:20:37,896] [main] testng.multiplier = 1.0 [testng] [2024-03-18 02:20:37,897] [main] testng.in-memory = false [testng] [2024-03-18 02:20:37,897] [main] testng.allow-missing = false [testng] [2024-03-18 02:20:37,897] [main] user.language = fr [testng] [2024-03-18 02:20:37,897] [main] user.country = FR [testng] [2024-03-18 02:20:37,898] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-03-18 02:20:50,609] [main] ---------------------------------------- [testng] [2024-03-18 02:20:50,609] [main] Total files: 944 [testng] [2024-03-18 02:20:50,609] [main] Scan time: 12.711 s (13 ms/file) [testng] [2024-03-18 02:20:50,609] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 15 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-03-18 02:21:50,664] [pool-1-thread-1] Initializing /data/stjude/AntoDayzerocy3OVP.tif: [testng] 02:21:50,665 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:21:50,665 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:21:50,666 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-03-18_02-21-50.log] [testng] 02:21:50,667 |-INFO in ch.qos.logback.core.sift.SiftProcessor@ab862ac - End of configuration. [testng] [2024-03-18 02:21:51,164] [pool-1-thread-12] Initializing /data/stjude/AntoDay4dblmyGRP.tif: [testng] 02:21:51,165 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:21:51,165 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:21:51,166 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-03-18_02-21-51.log] [testng] 02:21:51,167 |-INFO in ch.qos.logback.core.sift.SiftProcessor@166742d - End of configuration. [testng] [2024-03-18 02:21:51,470] [pool-1-thread-11] Initializing /data/stjude/AntoDay1cy3/c01f0001.TIF: [testng] 02:21:51,470 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:21:51,470 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:21:51,471 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-03-18_02-21-51.log] [testng] 02:21:51,472 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1d6a012e - End of configuration. [testng] [2024-03-18 02:21:51,795] [pool-1-thread-10] Initializing /data/primate/Leica_Image.tif: [testng] 02:21:51,796 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:21:51,796 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:21:51,796 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-03-18_02-21-51.log] [testng] 02:21:51,797 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1214f404 - End of configuration. [testng] [2024-03-18 02:21:52,160] [pool-1-thread-9] Initializing /data/stjude/Antoday1dblmysglGRP.tif: [testng] 02:21:52,160 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:21:52,160 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:21:52,161 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-03-18_02-21-52.log] [testng] 02:21:52,161 |-INFO in ch.qos.logback.core.sift.SiftProcessor@23dd36a4 - End of configuration. [testng] [2024-03-18 02:21:52,462] [pool-1-thread-8] Initializing /data/stjude/Antoday1dblcatsglGRP.tif: [testng] 02:21:52,462 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:21:52,462 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:21:52,463 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-03-18_02-21-52.log] [testng] 02:21:52,463 |-INFO in ch.qos.logback.core.sift.SiftProcessor@552aec55 - End of configuration. [testng] [2024-03-18 02:21:52,838] [pool-1-thread-7] Initializing /data/martin/Series028_z00_ch00.tif: [testng] 02:21:52,838 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:21:52,838 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:21:52,839 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-03-18_02-21-52.log] [testng] 02:21:52,839 |-INFO in ch.qos.logback.core.sift.SiftProcessor@75f696c7 - End of configuration. [testng] [2024-03-18 02:21:53,276] [pool-1-thread-6] Initializing /data/stjude/AntoDay4dblmy2GRP.tif: [testng] 02:21:53,277 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:21:53,277 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:21:53,278 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-03-18_02-21-53.log] [testng] 02:21:53,298 |-INFO in ch.qos.logback.core.sift.SiftProcessor@649fd666 - End of configuration. [testng] [2024-03-18 02:21:53,736] [pool-1-thread-5] Initializing /data/brian/Series002_z01.tif: [testng] 02:21:53,736 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:21:53,736 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:21:53,737 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-03-18_02-21-53.log] [testng] 02:21:53,737 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4d30d59f - End of configuration. [testng] [2024-03-18 02:21:54,289] [pool-1-thread-4] Initializing /data/stjude/AntoDay1dblGRP.tif: [testng] 02:21:54,289 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:21:54,289 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:21:54,290 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-03-18_02-21-54.log] [testng] 02:21:54,290 |-INFO in ch.qos.logback.core.sift.SiftProcessor@545c743c - End of configuration. [testng] [2024-03-18 02:21:54,710] [pool-1-thread-3] Initializing /data/stjude/Antoday1dblcat2dataGRP.tif: [testng] 02:21:54,711 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:21:54,711 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:21:54,711 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-03-18_02-21-54.log] [testng] 02:21:54,712 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5bc928c3 - End of configuration. [testng] [2024-03-18 02:21:55,038] [pool-1-thread-2] Initializing /data/stjude/AntoDay4dblcatdataGRP.tif: [testng] 02:21:55,039 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:21:55,039 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:21:55,039 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-03-18_02-21-55.log] [testng] 02:21:55,040 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7a7eae1b - End of configuration. [testng] [2024-03-18 02:21:58,877] [pool-1-thread-11] Initializing /data/stjude/AntoDayzerocy3GRP.tif: [testng] [2024-03-18 02:21:59,483] [pool-1-thread-10] Initializing /data/brian/Series002_z00_ch00.tif: [testng] [2024-03-18 02:22:00,135] [pool-1-thread-5] Initializing /data/dave/series 35/042911_Series035_t00_z000_ch00.tif: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 795, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 21 minutes 23 seconds Finished: SUCCESS