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Started by upstream project "BIOFORMATS-test-repo" build number 38 originally caused by: Started by upstream project "Trigger" build number 44 originally caused by: Started by user devspace 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/jenkins8920503064331162117.sh + '[' imagepro = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_5378_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] 10:35:50,631 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 10:35:50,633 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service. [testng] 10:35:50,633 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 10:35:50,634 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 10:35:50,634 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 10:35:50,635 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 10:35:50,635 |-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] 10:35:50,635 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 10:35:50,636 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 10:35:50,636 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 10:35:50,636 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 10:35:50,636 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 10:35:50,877 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 10:35:50,877 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 10:35:50,908 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 10:35:50,908 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 10:35:50,917 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 10:35:50,917 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 10:35:50,917 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 10:35:50,918 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 10:35:50,918 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 10:35:50,919 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 10:35:50,919 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 283 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-04-19 10:35:50,930] [main] java.version = 1.8.0_342 [testng] 10:35:50,934 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 10:35:50,934 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:35:50,981 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-04-19_10-35-50.log] [testng] 10:35:50,983 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-04-19 10:35:50,985] [main] testng.directory = /data [testng] [2024-04-19 10:35:50,986] [main] testng.configDirectory = /config [testng] [2024-04-19 10:35:50,999] [main] testng.multiplier = 1.0 [testng] [2024-04-19 10:35:51,000] [main] testng.in-memory = false [testng] [2024-04-19 10:35:51,000] [main] testng.allow-missing = false [testng] [2024-04-19 10:35:51,000] [main] user.language = en [testng] [2024-04-19 10:35:51,000] [main] user.country = ${user.country} [testng] [2024-04-19 10:35:51,000] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-04-19 10:35:52,161] [main] ---------------------------------------- [testng] [2024-04-19 10:35:52,162] [main] Total files: 22 [testng] [2024-04-19 10:35:52,162] [main] Scan time: 1.161 s (52 ms/file) [testng] [2024-04-19 10:35:52,162] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 21 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-04-19 10:35:59,377] [pool-1-thread-1] Initializing /data/converted/mitosis-test.ipw: [testng] 10:35:59,378 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 10:35:59,378 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:35:59,379 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-04-19_10-35-59.log] [testng] 10:35:59,380 |-INFO in ch.qos.logback.core.sift.SiftProcessor@45930f52 - End of configuration. [testng] [2024-04-19 10:35:59,464] [pool-1-thread-12] Initializing /data/xiuwen/head2.seq: [testng] 10:35:59,464 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 10:35:59,464 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:35:59,465 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-04-19_10-35-59.log] [testng] 10:35:59,466 |-INFO in ch.qos.logback.core.sift.SiftProcessor@76126d9 - End of configuration. [testng] [2024-04-19 10:35:59,559] [pool-1-thread-11] Initializing /data/converted/clown.ipw: [testng] 10:35:59,559 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 10:35:59,559 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:35:59,560 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-04-19_10-35-59.log] [testng] 10:35:59,560 |-INFO in ch.qos.logback.core.sift.SiftProcessor@35d84f45 - End of configuration. [testng] [2024-04-19 10:35:59,577] [pool-1-thread-10] Initializing /data/converted/dub01.ipw: [testng] 10:35:59,577 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 10:35:59,577 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:35:59,578 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-04-19_10-35-59.log] [testng] 10:35:59,578 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4c3d757f - End of configuration. [testng] [2024-04-19 10:35:59,603] [pool-1-thread-9] Initializing /data/converted/clown.seq: [testng] 10:35:59,604 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 10:35:59,604 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:35:59,604 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-04-19_10-35-59.log] [testng] 10:35:59,605 |-INFO in ch.qos.logback.core.sift.SiftProcessor@61615787 - End of configuration. [testng] [2024-04-19 10:35:59,617] [pool-1-thread-8] Initializing /data/converted/clown8c.seq: [testng] 10:35:59,617 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 10:35:59,617 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:35:59,618 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-04-19_10-35-59.log] [testng] 10:35:59,618 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4780f535 - End of configuration. [testng] [2024-04-19 10:35:59,631] [pool-1-thread-7] Initializing /data/alex/AFAset0003.ips: [testng] 10:35:59,631 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 10:35:59,631 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:35:59,632 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-04-19_10-35-59.log] [testng] 10:35:59,632 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5e75ff1f - End of configuration. [testng] [2024-04-19 10:35:59,644] [pool-1-thread-6] Initializing /data/converted/mitosis-test.tif: [testng] 10:35:59,644 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 10:35:59,644 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:35:59,645 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-04-19_10-35-59.log] [testng] 10:35:59,645 |-INFO in ch.qos.logback.core.sift.SiftProcessor@c4b2c3b - End of configuration. [testng] [2024-04-19 10:35:59,770] [pool-1-thread-5] Initializing /data/converted/clown.tif: [testng] 10:35:59,770 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 10:35:59,770 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:35:59,771 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-04-19_10-35-59.log] [testng] 10:35:59,771 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6ef9cde6 - End of configuration. [testng] [2024-04-19 10:35:59,783] [pool-1-thread-4] Initializing /data/converted/dub01.seq: [testng] 10:35:59,783 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 10:35:59,783 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:35:59,784 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-04-19_10-35-59.log] [testng] 10:35:59,784 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1ab7feae - End of configuration. [testng] [2024-04-19 10:35:59,809] [pool-1-thread-3] Initializing /data/samples/HEART.SEQ: [testng] 10:35:59,809 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 10:35:59,809 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:35:59,810 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-04-19_10-35-59.log] [testng] 10:35:59,810 |-INFO in ch.qos.logback.core.sift.SiftProcessor@753cb52a - End of configuration. [testng] [2024-04-19 10:35:59,857] [pool-1-thread-2] Initializing /data/converted/NESb_C2_TP7.tiff: [testng] 10:35:59,858 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 10:35:59,858 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:35:59,858 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-04-19_10-35-59.log] [testng] 10:35:59,859 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6076a22c - End of configuration. [testng] [2024-04-19 10:36:01,682] [pool-1-thread-11] Initializing /data/converted/NESb_C2_TP7.seq: [testng] [2024-04-19 10:36:01,705] [pool-1-thread-5] Initializing /data/converted/dub01.pic: [testng] [2024-04-19 10:36:01,727] [pool-1-thread-9] Initializing /data/converted/clown8c.tif: [testng] [2024-04-19 10:36:01,753] [pool-1-thread-8] Initializing /data/samples/PROBE.TIF: [testng] [2024-04-19 10:36:01,772] [pool-1-thread-1] Initializing /data/converted/mitosis-test.seq: [testng] [2024-04-19 10:36:01,803] [pool-1-thread-3] Initializing /data/samples/FLDUAL.TIF: [testng] [2024-04-19 10:36:01,836] [pool-1-thread-4] Initializing /data/converted/clown8c.ipw: [testng] [2024-04-19 10:36:01,848] [pool-1-thread-10] Initializing /data/converted/NESb_C2_TP7.ipw: [testng] [2024-04-19 10:36:02,042] [pool-1-thread-6] Initializing /data/samples/TISSUE.TIF: [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