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Started by upstream project "BIOFORMATS-test-repo" build number 31 originally caused by: Started by upstream project "Trigger" build number 35 originally caused by: Started by user devspace Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@7 [BIOFORMATS-test-folder@7] $ /bin/bash -xe /tmp/jenkins12243822557091440557.sh + '[' imagepro = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_4230_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] 08:45:21,629 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 08:45:21,631 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service. [testng] 08:45:21,631 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 08:45:21,633 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 08:45:21,633 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 08:45:21,633 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 08:45:21,633 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 0 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 08:45:21,633 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 08:45:21,634 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 08:45:21,634 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 08:45:21,634 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 08:45:21,634 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 08:45:21,873 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 08:45:21,874 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 08:45:21,904 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 08:45:21,904 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 08:45:21,914 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 08:45:21,914 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 08:45:21,914 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 08:45:21,915 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 08:45:21,915 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 08:45:21,916 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 08:45:21,916 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 282 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-04-12 08:45:21,926] [main] java.version = 1.8.0_342 [testng] 08:45:21,930 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 08:45:21,931 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:45:21,978 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-04-12_08-45-21.log] [testng] 08:45:21,980 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-04-12 08:45:21,982] [main] testng.directory = /data [testng] [2024-04-12 08:45:21,982] [main] testng.configDirectory = /config [testng] [2024-04-12 08:45:21,995] [main] testng.multiplier = 1.0 [testng] [2024-04-12 08:45:21,995] [main] testng.in-memory = false [testng] [2024-04-12 08:45:21,995] [main] testng.allow-missing = false [testng] [2024-04-12 08:45:21,995] [main] user.language = en [testng] [2024-04-12 08:45:21,995] [main] user.country = ${user.country} [testng] [2024-04-12 08:45:21,996] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-04-12 08:45:23,250] [main] ---------------------------------------- [testng] [2024-04-12 08:45:23,250] [main] Total files: 22 [testng] [2024-04-12 08:45:23,250] [main] Scan time: 1.254 s (57 ms/file) [testng] [2024-04-12 08:45:23,250] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 21 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-04-12 08:45:31,180] [pool-1-thread-1] Initializing /data/converted/mitosis-test.ipw: [testng] 08:45:31,181 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 08:45:31,181 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:45:31,182 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-04-12_08-45-31.log] [testng] 08:45:31,182 |-INFO in ch.qos.logback.core.sift.SiftProcessor@559b080 - End of configuration. [testng] [2024-04-12 08:45:31,220] [pool-1-thread-12] Initializing /data/xiuwen/head2.seq: [testng] 08:45:31,221 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 08:45:31,221 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:45:31,221 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-04-12_08-45-31.log] [testng] 08:45:31,222 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3635e727 - End of configuration. [testng] [2024-04-12 08:45:31,333] [pool-1-thread-11] Initializing /data/converted/clown.ipw: [testng] 08:45:31,333 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 08:45:31,333 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:45:31,334 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-04-12_08-45-31.log] [testng] 08:45:31,335 |-INFO in ch.qos.logback.core.sift.SiftProcessor@89a5e85 - End of configuration. [testng] [2024-04-12 08:45:31,352] [pool-1-thread-10] Initializing /data/converted/dub01.ipw: [testng] 08:45:31,352 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 08:45:31,353 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:45:31,354 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-04-12_08-45-31.log] [testng] 08:45:31,354 |-INFO in ch.qos.logback.core.sift.SiftProcessor@67e78a81 - End of configuration. [testng] [2024-04-12 08:45:31,379] [pool-1-thread-9] Initializing /data/converted/clown.seq: [testng] 08:45:31,380 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 08:45:31,380 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:45:31,381 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-04-12_08-45-31.log] [testng] 08:45:31,381 |-INFO in ch.qos.logback.core.sift.SiftProcessor@712eb4c3 - End of configuration. [testng] [2024-04-12 08:45:31,401] [pool-1-thread-8] Initializing /data/converted/clown8c.seq: [testng] 08:45:31,401 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 08:45:31,401 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:45:31,402 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-04-12_08-45-31.log] [testng] 08:45:31,402 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7f4f3dad - End of configuration. [testng] [2024-04-12 08:45:31,413] [pool-1-thread-7] Initializing /data/alex/AFAset0003.ips: [testng] 08:45:31,413 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 08:45:31,413 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:45:31,414 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-04-12_08-45-31.log] [testng] 08:45:31,414 |-INFO in ch.qos.logback.core.sift.SiftProcessor@368677ed - End of configuration. [testng] [2024-04-12 08:45:31,426] [pool-1-thread-6] Initializing /data/converted/mitosis-test.tif: [testng] 08:45:31,426 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 08:45:31,426 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:45:31,427 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-04-12_08-45-31.log] [testng] 08:45:31,427 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7aedb57f - End of configuration. [testng] [2024-04-12 08:45:31,548] [pool-1-thread-5] Initializing /data/converted/clown.tif: [testng] 08:45:31,549 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 08:45:31,549 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:45:31,550 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-04-12_08-45-31.log] [testng] 08:45:31,550 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2f86c212 - End of configuration. [testng] [2024-04-12 08:45:31,565] [pool-1-thread-4] Initializing /data/converted/dub01.seq: [testng] 08:45:31,565 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 08:45:31,565 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:45:31,566 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-04-12_08-45-31.log] [testng] 08:45:31,566 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4c054032 - End of configuration. [testng] [2024-04-12 08:45:31,586] [pool-1-thread-3] Initializing /data/samples/HEART.SEQ: [testng] 08:45:31,587 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 08:45:31,587 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:45:31,587 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-04-12_08-45-31.log] [testng] 08:45:31,588 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3495c447 - End of configuration. [testng] [2024-04-12 08:45:31,641] [pool-1-thread-2] Initializing /data/converted/NESb_C2_TP7.tiff: [testng] 08:45:31,641 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 08:45:31,641 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:45:31,642 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-04-12_08-45-31.log] [testng] 08:45:31,642 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5c6a5a66 - End of configuration. [testng] [2024-04-12 08:45:33,370] [pool-1-thread-5] Initializing /data/converted/NESb_C2_TP7.seq: [testng] [2024-04-12 08:45:33,396] [pool-1-thread-9] Initializing /data/converted/dub01.pic: [testng] [2024-04-12 08:45:33,419] [pool-1-thread-11] Initializing /data/converted/clown8c.tif: [testng] [2024-04-12 08:45:33,442] [pool-1-thread-8] Initializing /data/samples/PROBE.TIF: [testng] [2024-04-12 08:45:33,460] [pool-1-thread-1] Initializing /data/converted/mitosis-test.seq: [testng] [2024-04-12 08:45:33,489] [pool-1-thread-3] Initializing /data/samples/FLDUAL.TIF: [testng] [2024-04-12 08:45:33,540] [pool-1-thread-4] Initializing /data/converted/clown8c.ipw: [testng] [2024-04-12 08:45:33,550] [pool-1-thread-10] Initializing /data/converted/NESb_C2_TP7.ipw: [testng] [2024-04-12 08:45:33,651] [pool-1-thread-2] 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: 30 seconds Finished: SUCCESS