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Started by upstream project "BIOFORMATS-test-repo" build number 23 originally caused by: Started by upstream project "Trigger" build number 26 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/jenkins301534821433315918.sh + '[' imagepro = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_2918_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 test-automated: [testng] File leak detector installed [testng] 02:42:27,720 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 02:42:27,722 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service. [testng] 02:42:27,722 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:42:27,723 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:42:27,723 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 02:42:27,724 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 02:42:27,724 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 02:42:27,724 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:42:27,725 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:42:27,725 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 02:42:27,725 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 02:42:27,725 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 02:42:27,972 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:42:27,972 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:42:28,002 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:42:28,002 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:42:28,012 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:42:28,012 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:42:28,012 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:42:28,012 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:42:28,013 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 02:42:28,013 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 02:42:28,013 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 288 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-04-05 02:42:28,024] [main] java.version = 1.8.0_342 [testng] 02:42:28,028 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:42:28,028 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:42:28,077 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-04-05_02-42-28.log] [testng] 02:42:28,078 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-04-05 02:42:28,081] [main] testng.directory = /data [testng] [2024-04-05 02:42:28,081] [main] testng.configDirectory = /config [testng] [2024-04-05 02:42:28,094] [main] testng.multiplier = 1.0 [testng] [2024-04-05 02:42:28,095] [main] testng.in-memory = false [testng] [2024-04-05 02:42:28,095] [main] testng.allow-missing = false [testng] [2024-04-05 02:42:28,095] [main] user.language = en [testng] [2024-04-05 02:42:28,095] [main] user.country = ${user.country} [testng] [2024-04-05 02:42:28,095] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-04-05 02:42:29,173] [main] ---------------------------------------- [testng] [2024-04-05 02:42:29,173] [main] Total files: 22 [testng] [2024-04-05 02:42:29,173] [main] Scan time: 1.078 s (49 ms/file) [testng] [2024-04-05 02:42:29,173] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 21 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-04-05 02:42:35,999] [pool-1-thread-1] Initializing /data/converted/mitosis-test.ipw: [testng] 02:42:35,999 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:42:36,000 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:42:36,000 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-04-05_02-42-36.log] [testng] 02:42:36,001 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3e6d7e06 - End of configuration. [testng] [2024-04-05 02:42:36,040] [pool-1-thread-12] Initializing /data/xiuwen/head2.seq: [testng] 02:42:36,040 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:42:36,040 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:42:36,041 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-04-05_02-42-36.log] [testng] 02:42:36,041 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1b480fed - End of configuration. [testng] [2024-04-05 02:42:36,144] [pool-1-thread-11] Initializing /data/converted/clown.ipw: [testng] 02:42:36,146 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:42:36,146 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:42:36,148 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-04-05_02-42-36.log] [testng] 02:42:36,150 |-INFO in ch.qos.logback.core.sift.SiftProcessor@383d32c5 - End of configuration. [testng] [2024-04-05 02:42:36,192] [pool-1-thread-10] Initializing /data/converted/dub01.ipw: [testng] 02:42:36,193 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:42:36,193 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:42:36,194 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-04-05_02-42-36.log] [testng] 02:42:36,194 |-INFO in ch.qos.logback.core.sift.SiftProcessor@41b88a12 - End of configuration. [testng] [2024-04-05 02:42:36,237] [pool-1-thread-9] Initializing /data/converted/clown.seq: [testng] 02:42:36,238 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:42:36,238 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:42:36,239 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-04-05_02-42-36.log] [testng] 02:42:36,239 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7cc4ada5 - End of configuration. [testng] [2024-04-05 02:42:36,258] [pool-1-thread-8] Initializing /data/converted/clown8c.seq: [testng] 02:42:36,258 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:42:36,259 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:42:36,259 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-04-05_02-42-36.log] [testng] 02:42:36,260 |-INFO in ch.qos.logback.core.sift.SiftProcessor@23a925c7 - End of configuration. [testng] [2024-04-05 02:42:36,278] [pool-1-thread-7] Initializing /data/alex/AFAset0003.ips: [testng] 02:42:36,278 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:42:36,279 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:42:36,279 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-04-05_02-42-36.log] [testng] 02:42:36,280 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7268388f - End of configuration. [testng] [2024-04-05 02:42:36,298] [pool-1-thread-6] Initializing /data/converted/mitosis-test.tif: [testng] 02:42:36,298 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:42:36,298 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:42:36,299 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-04-05_02-42-36.log] [testng] 02:42:36,299 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1d63e0c0 - End of configuration. [testng] [2024-04-05 02:42:36,454] [pool-1-thread-5] Initializing /data/converted/clown.tif: [testng] 02:42:36,454 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:42:36,454 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:42:36,455 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-04-05_02-42-36.log] [testng] 02:42:36,455 |-INFO in ch.qos.logback.core.sift.SiftProcessor@76916939 - End of configuration. [testng] [2024-04-05 02:42:36,467] [pool-1-thread-4] Initializing /data/converted/dub01.seq: [testng] 02:42:36,467 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:42:36,467 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:42:36,467 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-04-05_02-42-36.log] [testng] 02:42:36,468 |-INFO in ch.qos.logback.core.sift.SiftProcessor@217ae782 - End of configuration. [testng] [2024-04-05 02:42:36,488] [pool-1-thread-3] Initializing /data/samples/HEART.SEQ: [testng] 02:42:36,489 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:42:36,489 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:42:36,489 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-04-05_02-42-36.log] [testng] 02:42:36,490 |-INFO in ch.qos.logback.core.sift.SiftProcessor@26f37c02 - End of configuration. [testng] [2024-04-05 02:42:36,547] [pool-1-thread-2] Initializing /data/converted/NESb_C2_TP7.tiff: [testng] 02:42:36,547 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:42:36,547 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:42:36,549 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-04-05_02-42-36.log] [testng] 02:42:36,550 |-INFO in ch.qos.logback.core.sift.SiftProcessor@55a64f11 - End of configuration. [testng] [2024-04-05 02:42:38,683] [pool-1-thread-11] Initializing /data/converted/NESb_C2_TP7.seq: [testng] [2024-04-05 02:42:38,706] [pool-1-thread-10] Initializing /data/samples/TISSUE.TIF: [testng] [2024-04-05 02:42:38,735] [pool-1-thread-9] Initializing /data/converted/dub01.pic: [testng] [2024-04-05 02:42:38,757] [pool-1-thread-5] Initializing /data/converted/clown8c.tif: [testng] [2024-04-05 02:42:38,780] [pool-1-thread-8] Initializing /data/samples/PROBE.TIF: [testng] [2024-04-05 02:42:38,796] [pool-1-thread-1] Initializing /data/converted/mitosis-test.seq: [testng] [2024-04-05 02:42:38,834] [pool-1-thread-3] Initializing /data/samples/FLDUAL.TIF: [testng] [2024-04-05 02:42:38,863] [pool-1-thread-6] Initializing /data/converted/clown8c.ipw: [testng] [2024-04-05 02:42:38,875] [pool-1-thread-2] Initializing /data/converted/NESb_C2_TP7.ipw: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1113, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 27 seconds Finished: SUCCESS