Started by upstream project "BIOFORMATS-test-repo" build number 107 originally caused by: Started by upstream project "Trigger" build number 119 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@3 [BIOFORMATS-test-folder@3] $ /bin/bash -xe /tmp/jenkins12234047816301850259.sh + '[' leica-tcs = slidebook ']' ++ date +%u + '[' 7 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_16680_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 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] Could not load field socket from SocketImpl: java.lang.NoSuchFieldException: socket [testng] Could not load field serverSocket from SocketImpl: java.lang.NoSuchFieldException: serverSocket [testng] File leak detector installed [testng] 02:36:35,521 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 02:36:35,523 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service. [testng] 02:36:35,523 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:36:35,524 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:36:35,524 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 02:36:35,525 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 02:36:35,525 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 02:36:35,525 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:36:35,525 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:36:35,526 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 02:36:35,526 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 02:36:35,527 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 02:36:35,730 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:36:35,730 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:36:35,754 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:36:35,754 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:36:35,760 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:36:35,761 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:36:35,761 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:36:35,761 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:36:35,761 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration. [testng] 02:36:35,762 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point [testng] 02:36:35,762 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 237 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-06-30 02:36:35,772] [main] java.version = 17.0.2 [testng] 02:36:35,776 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:36:35,776 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:36:35,819 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-06-30_02-36-35.log] [testng] 02:36:35,820 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration. [testng] [2024-06-30 02:36:35,823] [main] testng.directory = /data [testng] [2024-06-30 02:36:35,823] [main] testng.configDirectory = /config [testng] [2024-06-30 02:36:35,832] [main] testng.multiplier = 1.0 [testng] [2024-06-30 02:36:35,833] [main] testng.in-memory = false [testng] [2024-06-30 02:36:35,833] [main] testng.allow-missing = false [testng] [2024-06-30 02:36:35,833] [main] user.language = en [testng] [2024-06-30 02:36:35,833] [main] user.country = ${user.country} [testng] [2024-06-30 02:36:35,833] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-06-30 02:36:45,628] [main] ---------------------------------------- [testng] [2024-06-30 02:36:45,629] [main] Total files: 944 [testng] [2024-06-30 02:36:45,629] [main] Scan time: 9.795 s (10 ms/file) [testng] [2024-06-30 02:36:45,629] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 15 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-06-30 02:37:15,428] [pool-1-thread-1] Initializing /data/brian/Series002_z01.tif: [testng] 02:37:15,435 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:37:15,435 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:37:15,436 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-06-30_02-37-15.log] [testng] 02:37:15,437 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6b42f0ee - End of configuration. [testng] [2024-06-30 02:37:15,502] [pool-1-thread-12] Initializing /data/stjude/AntoDayzerocy3OVP.tif: [testng] 02:37:15,502 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:37:15,502 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:37:15,503 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-06-30_02-37-15.log] [testng] 02:37:15,503 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3dce2da6 - End of configuration. [testng] [2024-06-30 02:37:15,545] [pool-1-thread-11] Initializing /data/stjude/Antoday1dblmysglGRP.tif: [testng] 02:37:15,546 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:37:15,546 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:37:15,546 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-06-30_02-37-15.log] [testng] 02:37:15,547 |-INFO in ch.qos.logback.core.sift.SiftProcessor@59d2ae2e - End of configuration. [testng] [2024-06-30 02:37:15,605] [pool-1-thread-10] Initializing /data/stjude/AntoDay1cy3/c01f0001.TIF: [testng] 02:37:15,605 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:37:15,605 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:37:15,606 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-06-30_02-37-15.log] [testng] 02:37:15,607 |-INFO in ch.qos.logback.core.sift.SiftProcessor@e1ad275 - End of configuration. [testng] [2024-06-30 02:37:15,639] [pool-1-thread-9] Initializing /data/primate/Leica_Image.tif: [testng] 02:37:15,639 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:37:15,639 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:37:15,640 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-06-30_02-37-15.log] [testng] 02:37:15,640 |-INFO in ch.qos.logback.core.sift.SiftProcessor@20ecf0dc - End of configuration. [testng] [2024-06-30 02:37:15,699] [pool-1-thread-8] Initializing /data/stjude/Antoday1dblcat2dataGRP.tif: [testng] 02:37:15,699 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:37:15,700 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:37:15,700 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-06-30_02-37-15.log] [testng] 02:37:15,701 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7ca6ae30 - End of configuration. [testng] [2024-06-30 02:37:15,747] [pool-1-thread-7] Initializing /data/brian/Series002_z00_ch00.tif: [testng] 02:37:15,747 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:37:15,747 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:37:15,748 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-06-30_02-37-15.log] [testng] 02:37:15,748 |-INFO in ch.qos.logback.core.sift.SiftProcessor@34de9d8c - End of configuration. [testng] [2024-06-30 02:37:15,791] [pool-1-thread-6] Initializing /data/stjude/AntoDayzerocy3GRP.tif: [testng] 02:37:15,792 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:37:15,792 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:37:15,792 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-06-30_02-37-15.log] [testng] 02:37:15,793 |-INFO in ch.qos.logback.core.sift.SiftProcessor@22d2571f - End of configuration. [testng] [2024-06-30 02:37:15,828] [pool-1-thread-5] Initializing /data/stjude/AntoDay4dblmyGRP.tif: [testng] 02:37:15,828 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:37:15,828 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:37:15,829 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-06-30_02-37-15.log] [testng] 02:37:15,830 |-INFO in ch.qos.logback.core.sift.SiftProcessor@92bcccf - End of configuration. [testng] [2024-06-30 02:37:15,870] [pool-1-thread-4] Initializing /data/dave/series 35/042911_Series035_t00_z000_ch00.tif: [testng] 02:37:15,870 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:37:15,870 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:37:15,871 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-06-30_02-37-15.log] [testng] 02:37:15,871 |-INFO in ch.qos.logback.core.sift.SiftProcessor@22db25cd - End of configuration. [testng] [2024-06-30 02:37:21,447] [pool-1-thread-3] Initializing /data/stjude/AntoDay4dblcatdataGRP.tif: [testng] 02:37:21,448 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:37:21,448 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:37:21,449 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-06-30_02-37-21.log] [testng] 02:37:21,449 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7d7b382a - End of configuration. [testng] [2024-06-30 02:37:21,508] [pool-1-thread-2] Initializing /data/martin/Series028_z00_ch00.tif: [testng] 02:37:21,508 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:37:21,508 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:37:21,509 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-06-30_02-37-21.log] [testng] 02:37:21,509 |-INFO in ch.qos.logback.core.sift.SiftProcessor@78879b75 - End of configuration. [testng] [2024-06-30 02:37:23,586] [pool-1-thread-1] Initializing /data/stjude/AntoDay1dblGRP.tif: [testng] [2024-06-30 02:37:23,618] [pool-1-thread-11] Initializing /data/stjude/Antoday1dblcatsglGRP.tif: [testng] [2024-06-30 02:37:23,672] [pool-1-thread-8] Initializing /data/stjude/AntoDay4dblmy2GRP.tif: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 795, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 10 minutes 9 seconds Finished: SUCCESS