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Started by upstream project "BIOFORMATS-test-repo" build number 29 originally caused by: Started by upstream project "Trigger" build number 32 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@8 [BIOFORMATS-test-folder@8] $ /bin/bash -xe /tmp/jenkins15610071627165692233.sh + '[' imagepro = slidebook ']' ++ date +%u + '[' 3 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_3902_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] 02:42:08,274 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 02:42:08,276 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service. [testng] 02:42:08,276 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:42:08,277 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:42:08,277 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 02:42:08,277 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 02:42:08,278 |-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] 02:42:08,278 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:42:08,278 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:42:08,279 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 02:42:08,279 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 02:42:08,280 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 02:42:08,449 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:42:08,449 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:42:08,472 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:42:08,473 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:42:08,484 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:42:08,485 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:42:08,486 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:42:08,489 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:42:08,490 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration. [testng] 02:42:08,494 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point [testng] 02:42:08,494 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 216 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-04-10 02:42:08,505] [main] java.version = 17.0.2 [testng] 02:42:08,509 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:42:08,509 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:42:08,551 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-04-10_02-42-08.log] [testng] 02:42:08,553 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration. [testng] [2024-04-10 02:42:08,555] [main] testng.directory = /data [testng] [2024-04-10 02:42:08,555] [main] testng.configDirectory = /config [testng] [2024-04-10 02:42:08,564] [main] testng.multiplier = 1.0 [testng] [2024-04-10 02:42:08,565] [main] testng.in-memory = false [testng] [2024-04-10 02:42:08,565] [main] testng.allow-missing = false [testng] [2024-04-10 02:42:08,565] [main] user.language = en [testng] [2024-04-10 02:42:08,565] [main] user.country = ${user.country} [testng] [2024-04-10 02:42:08,565] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-04-10 02:42:09,615] [main] ---------------------------------------- [testng] [2024-04-10 02:42:09,615] [main] Total files: 22 [testng] [2024-04-10 02:42:09,615] [main] Scan time: 1.05 s (47 ms/file) [testng] [2024-04-10 02:42:09,615] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 21 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-04-10 02:42:17,280] [pool-1-thread-1] Initializing /data/converted/mitosis-test.tif: [testng] 02:42:17,281 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:42:17,281 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:42:17,282 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-04-10_02-42-17.log] [testng] 02:42:17,282 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2ee42070 - End of configuration. [testng] [2024-04-10 02:42:17,463] [pool-1-thread-12] Initializing /data/samples/TISSUE.TIF: [testng] 02:42:17,463 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:42:17,463 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:42:17,465 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-04-10_02-42-17.log] [testng] 02:42:17,465 |-INFO in ch.qos.logback.core.sift.SiftProcessor@27d6d08 - End of configuration. [testng] [2024-04-10 02:42:17,495] [pool-1-thread-11] Initializing /data/converted/NESb_C2_TP7.ipw: [testng] 02:42:17,495 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:42:17,495 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:42:17,496 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-04-10_02-42-17.log] [testng] 02:42:17,497 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6686711f - End of configuration. [testng] [2024-04-10 02:42:17,534] [pool-1-thread-10] Initializing /data/xiuwen/head2.seq: [testng] 02:42:17,535 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:42:17,535 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:42:17,536 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-04-10_02-42-17.log] [testng] 02:42:17,536 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3cc61d5c - End of configuration. [testng] [2024-04-10 02:42:17,672] [pool-1-thread-9] Initializing /data/converted/dub01.ipw: [testng] 02:42:17,672 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:42:17,672 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:42:17,673 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-04-10_02-42-17.log] [testng] 02:42:17,673 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5a93aa0d - End of configuration. [testng] [2024-04-10 02:42:17,700] [pool-1-thread-8] Initializing /data/converted/clown.ipw: [testng] 02:42:17,700 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:42:17,700 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:42:17,701 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-04-10_02-42-17.log] [testng] 02:42:17,701 |-INFO in ch.qos.logback.core.sift.SiftProcessor@32f7604 - End of configuration. [testng] [2024-04-10 02:42:17,716] [pool-1-thread-7] Initializing /data/converted/NESb_C2_TP7.seq: [testng] 02:42:17,716 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:42:17,717 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:42:17,717 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-04-10_02-42-17.log] [testng] 02:42:17,718 |-INFO in ch.qos.logback.core.sift.SiftProcessor@48ba7317 - End of configuration. [testng] [2024-04-10 02:42:17,748] [pool-1-thread-6] Initializing /data/converted/clown8c.seq: [testng] 02:42:17,749 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:42:17,749 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:42:17,749 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-04-10_02-42-17.log] [testng] 02:42:17,750 |-INFO in ch.qos.logback.core.sift.SiftProcessor@15e80250 - End of configuration. [testng] [2024-04-10 02:42:17,764] [pool-1-thread-5] Initializing /data/converted/mitosis-test.ipw: [testng] 02:42:17,764 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:42:17,765 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:42:17,765 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-04-10_02-42-17.log] [testng] 02:42:17,766 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3d114b2b - End of configuration. [testng] [2024-04-10 02:42:17,819] [pool-1-thread-4] Initializing /data/converted/clown.tif: [testng] 02:42:17,819 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:42:17,819 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:42:17,820 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-04-10_02-42-17.log] [testng] 02:42:17,820 |-INFO in ch.qos.logback.core.sift.SiftProcessor@29eaee15 - End of configuration. [testng] [2024-04-10 02:42:17,838] [pool-1-thread-3] Initializing /data/converted/clown.seq: [testng] 02:42:17,839 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:42:17,839 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:42:17,839 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-04-10_02-42-17.log] [testng] 02:42:17,840 |-INFO in ch.qos.logback.core.sift.SiftProcessor@d90057d - End of configuration. [testng] [2024-04-10 02:42:17,857] [pool-1-thread-2] Initializing /data/converted/clown8c.tif: [testng] 02:42:17,857 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:42:17,857 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:42:17,858 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-04-10_02-42-17.log] [testng] 02:42:17,858 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1c9bd09c - End of configuration. [testng] [2024-04-10 02:42:19,542] [pool-1-thread-6] Initializing /data/converted/dub01.seq: [testng] [2024-04-10 02:42:19,565] [pool-1-thread-8] Initializing /data/converted/NESb_C2_TP7.tiff: [testng] [2024-04-10 02:42:19,632] [pool-1-thread-3] Initializing /data/samples/FLDUAL.TIF: [testng] [2024-04-10 02:42:19,682] [pool-1-thread-4] Initializing /data/samples/PROBE.TIF: [testng] [2024-04-10 02:42:19,705] [pool-1-thread-5] Initializing /data/converted/dub01.pic: [testng] [2024-04-10 02:42:19,729] [pool-1-thread-2] Initializing /data/converted/clown8c.ipw: [testng] [2024-04-10 02:42:19,742] [pool-1-thread-12] Initializing /data/alex/AFAset0003.ips: [testng] [2024-04-10 02:42:19,753] [pool-1-thread-9] Initializing /data/converted/mitosis-test.seq: [testng] [2024-04-10 02:42:19,838] [pool-1-thread-11] 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: 30 seconds Finished: SUCCESS