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Started by upstream project "BIOFORMATS-test-repo" build number 101 originally caused by: Started by upstream project "Trigger" build number 112 originally caused by: Started by timer 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/jenkins7283904118791774145.sh + '[' imagepro = slidebook ']' ++ date +%u + '[' 7 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_15711_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 [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] 02:42:38,376 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 02:42:38,377 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service. [testng] 02:42:38,377 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:42:38,378 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:42:38,378 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 02:42:38,379 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 02:42:38,379 |-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] 02:42:38,379 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:42:38,380 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:42:38,380 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 02:42:38,380 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 02:42:38,381 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 02:42:38,558 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:42:38,558 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:42:38,584 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:42:38,584 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:42:38,591 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:42:38,591 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:42:38,591 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:42:38,592 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:42:38,592 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration. [testng] 02:42:38,593 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point [testng] 02:42:38,593 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 213 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-06-23 02:42:38,603] [main] java.version = 17.0.2 [testng] 02:42:38,607 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:42:38,607 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:42:38,654 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-06-23_02-42-38.log] [testng] 02:42:38,656 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration. [testng] [2024-06-23 02:42:38,658] [main] testng.directory = /data [testng] [2024-06-23 02:42:38,658] [main] testng.configDirectory = /config [testng] [2024-06-23 02:42:38,668] [main] testng.multiplier = 1.0 [testng] [2024-06-23 02:42:38,669] [main] testng.in-memory = false [testng] [2024-06-23 02:42:38,669] [main] testng.allow-missing = false [testng] [2024-06-23 02:42:38,669] [main] user.language = en [testng] [2024-06-23 02:42:38,670] [main] user.country = ${user.country} [testng] [2024-06-23 02:42:38,670] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-06-23 02:42:39,748] [main] ---------------------------------------- [testng] [2024-06-23 02:42:39,748] [main] Total files: 22 [testng] [2024-06-23 02:42:39,748] [main] Scan time: 1.078 s (49 ms/file) [testng] [2024-06-23 02:42:39,748] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 21 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-06-23 02:42:47,283] [pool-1-thread-1] Initializing /data/converted/mitosis-test.tif: [testng] 02:42:47,283 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:42:47,283 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:42:47,285 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-06-23_02-42-47.log] [testng] 02:42:47,285 |-INFO in ch.qos.logback.core.sift.SiftProcessor@59b7c562 - End of configuration. [testng] [2024-06-23 02:42:47,489] [pool-1-thread-12] Initializing /data/samples/TISSUE.TIF: [testng] 02:42:47,490 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:42:47,490 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:42:47,491 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-06-23_02-42-47.log] [testng] 02:42:47,491 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2e24bdf2 - End of configuration. [testng] [2024-06-23 02:42:47,536] [pool-1-thread-11] Initializing /data/converted/NESb_C2_TP7.ipw: [testng] 02:42:47,536 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:42:47,536 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:42:47,537 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-06-23_02-42-47.log] [testng] 02:42:47,537 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4f207649 - End of configuration. [testng] [2024-06-23 02:42:47,577] [pool-1-thread-10] Initializing /data/xiuwen/head2.seq: [testng] 02:42:47,578 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:42:47,578 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:42:47,578 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-06-23_02-42-47.log] [testng] 02:42:47,579 |-INFO in ch.qos.logback.core.sift.SiftProcessor@792a415c - End of configuration. [testng] [2024-06-23 02:42:47,682] [pool-1-thread-9] Initializing /data/converted/dub01.ipw: [testng] 02:42:47,683 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:42:47,683 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:42:47,683 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-06-23_02-42-47.log] [testng] 02:42:47,684 |-INFO in ch.qos.logback.core.sift.SiftProcessor@53d507c2 - End of configuration. [testng] [2024-06-23 02:42:47,712] [pool-1-thread-8] Initializing /data/converted/clown.ipw: [testng] 02:42:47,712 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:42:47,713 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:42:47,714 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-06-23_02-42-47.log] [testng] 02:42:47,714 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3ad0ef37 - End of configuration. [testng] [2024-06-23 02:42:47,729] [pool-1-thread-7] Initializing /data/converted/NESb_C2_TP7.seq: [testng] 02:42:47,729 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:42:47,729 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:42:47,730 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-06-23_02-42-47.log] [testng] 02:42:47,730 |-INFO in ch.qos.logback.core.sift.SiftProcessor@31c2906c - End of configuration. [testng] [2024-06-23 02:42:47,762] [pool-1-thread-6] Initializing /data/converted/clown8c.seq: [testng] 02:42:47,762 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:42:47,762 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:42:47,763 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-06-23_02-42-47.log] [testng] 02:42:47,763 |-INFO in ch.qos.logback.core.sift.SiftProcessor@32f7604 - End of configuration. [testng] [2024-06-23 02:42:47,777] [pool-1-thread-5] Initializing /data/converted/mitosis-test.ipw: [testng] 02:42:47,777 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:42:47,778 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:42:47,778 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-06-23_02-42-47.log] [testng] 02:42:47,778 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5ad238b1 - End of configuration. [testng] [2024-06-23 02:42:47,810] [pool-1-thread-4] Initializing /data/converted/clown.tif: [testng] 02:42:47,810 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:42:47,810 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:42:47,811 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-06-23_02-42-47.log] [testng] 02:42:47,811 |-INFO in ch.qos.logback.core.sift.SiftProcessor@48ba7317 - End of configuration. [testng] [2024-06-23 02:42:47,825] [pool-1-thread-3] Initializing /data/converted/clown.seq: [testng] 02:42:47,825 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:42:47,826 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:42:47,826 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-06-23_02-42-47.log] [testng] 02:42:47,827 |-INFO in ch.qos.logback.core.sift.SiftProcessor@15e80250 - End of configuration. [testng] [2024-06-23 02:42:47,843] [pool-1-thread-2] Initializing /data/converted/clown8c.tif: [testng] 02:42:47,843 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:42:47,843 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:42:47,844 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-06-23_02-42-47.log] [testng] 02:42:47,844 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3d114b2b - End of configuration. [testng] [2024-06-23 02:42:49,749] [pool-1-thread-5] Initializing /data/converted/dub01.seq: [testng] [2024-06-23 02:42:49,775] [pool-1-thread-4] Initializing /data/converted/NESb_C2_TP7.tiff: [testng] [2024-06-23 02:42:49,841] [pool-1-thread-6] Initializing /data/samples/FLDUAL.TIF: [testng] [2024-06-23 02:42:49,878] [pool-1-thread-3] Initializing /data/samples/PROBE.TIF: [testng] [2024-06-23 02:42:49,893] [pool-1-thread-8] Initializing /data/converted/dub01.pic: [testng] [2024-06-23 02:42:49,922] [pool-1-thread-2] Initializing /data/converted/clown8c.ipw: [testng] [2024-06-23 02:42:49,931] [pool-1-thread-12] Initializing /data/alex/AFAset0003.ips: [testng] [2024-06-23 02:42:49,943] [pool-1-thread-9] Initializing /data/converted/mitosis-test.seq: [testng] [2024-06-23 02:42:50,224] [pool-1-thread-1] Initializing /data/samples/HEART.SEQ: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1113, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 28 seconds Finished: SUCCESS