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Started by upstream project "BIOFORMATS-test-repo" build number 307 originally caused by: Started by upstream project "Trigger" build number 329 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/jenkins12404708054593877563.sh + '[' imaris = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_48670_merge_ci -v /uod/idr/repos/curated/imaris:/data -v /uod/idr-scratch/merge-ci/curated/imaris:/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] 03:01:05,173 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 03:01:05,175 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 03:01:05,175 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 03:01:05,176 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 03:01:05,176 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 03:01:05,176 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 03:01:05,176 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 0 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 03:01:05,176 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 03:01:05,177 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 03:01:05,177 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 03:01:05,177 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 03:01:05,177 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 03:01:05,407 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 03:01:05,408 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 03:01:05,435 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 03:01:05,435 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 03:01:05,443 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 03:01:05,444 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 03:01:05,444 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 03:01:05,444 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 03:01:05,444 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 03:01:05,445 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 03:01:05,445 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 268 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-01-03 03:01:05,455] [main] java.version = 1.8.0_342 [testng] 03:01:05,459 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 03:01:05,459 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:01:05,504 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-01-03_03-01-05.log] [testng] 03:01:05,506 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2025-01-03 03:01:05,508] [main] testng.directory = /data [testng] [2025-01-03 03:01:05,508] [main] testng.configDirectory = /config [testng] [2025-01-03 03:01:05,520] [main] testng.multiplier = 1.0 [testng] [2025-01-03 03:01:05,521] [main] testng.in-memory = false [testng] [2025-01-03 03:01:05,521] [main] testng.allow-missing = false [testng] [2025-01-03 03:01:05,521] [main] user.language = en [testng] [2025-01-03 03:01:05,521] [main] user.country = ${user.country} [testng] [2025-01-03 03:01:05,521] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2025-01-03 03:01:29,934] [main] ---------------------------------------- [testng] [2025-01-03 03:01:29,934] [main] Total files: 73 [testng] [2025-01-03 03:01:29,934] [main] Scan time: 24.413 s (334 ms/file) [testng] [2025-01-03 03:01:29,934] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 63 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-01-03 03:02:08,352] [pool-1-thread-1] Initializing /data/jcb/fig 6B GFP-AP-2d.ims: [testng] 03:02:08,352 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 03:02:08,352 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:02:08,354 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-01-03_03-02-08.log] [testng] 03:02:08,354 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2d22019b - End of configuration. [testng] [2025-01-03 03:02:08,550] [pool-1-thread-12] Initializing /data/generated/10-31_E_t0003.ims: [testng] 03:02:08,551 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 03:02:08,551 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:02:08,551 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-01-03_03-02-08.log] [testng] 03:02:08,552 |-INFO in ch.qos.logback.core.sift.SiftProcessor@775b5bea - End of configuration. [testng] [2025-01-03 03:02:08,633] [pool-1-thread-11] Initializing /data/qa-4898/o383_1_457_CS_r1.ims: [testng] 03:02:08,633 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 03:02:08,633 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:02:08,634 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-01-03_03-02-08.log] [testng] 03:02:08,634 |-INFO in ch.qos.logback.core.sift.SiftProcessor@715a2c9d - End of configuration. [testng] [2025-01-03 03:02:08,847] [pool-1-thread-10] Initializing /data/public/davemason/TransFactors_2C_34Z_SRRF.ims: [testng] 03:02:08,848 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 03:02:08,848 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:02:08,848 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-01-03_03-02-08.log] [testng] 03:02:08,849 |-INFO in ch.qos.logback.core.sift.SiftProcessor@22062c9f - End of configuration. [testng] [2025-01-03 03:02:09,043] [pool-1-thread-9] Initializing /data/oliver/Stack2_u16Bit.ims: [testng] 03:02:09,043 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 03:02:09,044 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:02:09,044 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-01-03_03-02-09.log] [testng] 03:02:09,044 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6ba1e2e4 - End of configuration. [testng] [2025-01-03 03:02:09,324] [pool-1-thread-8] Initializing /data/public/davemason/Convallaria_3C_3T_35Z_confocal_deconvolved.ims: [testng] 03:02:09,324 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 03:02:09,324 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:02:09,325 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-01-03_03-02-09.log] [testng] 03:02:09,325 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6ad0d8ac - End of configuration. [testng] [2025-01-03 03:02:09,562] [pool-1-thread-7] Initializing /data/qa-17515/Organoid=1.ims: [testng] 03:02:09,562 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 03:02:09,562 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:02:09,563 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-01-03_03-02-09.log] [testng] 03:02:09,563 |-INFO in ch.qos.logback.core.sift.SiftProcessor@28601ce8 - End of configuration. [testng] [2025-01-03 03:02:10,072] [pool-1-thread-6] Initializing /data/generated/10-31_E_t0005.ims: [testng] 03:02:10,072 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 03:02:10,072 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:02:10,073 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-01-03_03-02-10.log] [testng] 03:02:10,073 |-INFO in ch.qos.logback.core.sift.SiftProcessor@bb0e820 - End of configuration. [testng] [2025-01-03 03:02:10,256] [pool-1-thread-5] Initializing /data/generated/10-31_E_t0000.ims: [testng] 03:02:10,257 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 03:02:10,257 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:02:10,257 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-01-03_03-02-10.log] [testng] 03:02:10,258 |-INFO in ch.qos.logback.core.sift.SiftProcessor@a1b5187 - End of configuration. [testng] [2025-01-03 03:02:10,374] [pool-1-thread-4] Initializing /data/oliver/Stack2_8Bit.ims: [testng] 03:02:10,374 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 03:02:10,374 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:02:10,375 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-01-03_03-02-10.log] [testng] 03:02:10,375 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4128ba69 - End of configuration. [testng] [2025-01-03 03:02:10,690] [pool-1-thread-3] Initializing /data/generated/10-31_E_t0007.ims: [testng] 03:02:10,690 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 03:02:10,690 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:02:10,691 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-01-03_03-02-10.log] [testng] 03:02:10,691 |-INFO in ch.qos.logback.core.sift.SiftProcessor@45f41897 - End of configuration. [testng] [2025-01-03 03:02:11,089] [pool-1-thread-2] Initializing /data/generated/10-31_E_t0001.ims: [testng] 03:02:11,089 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 03:02:11,089 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:02:11,090 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-01-03_03-02-11.log] [testng] 03:02:11,090 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3a7514dc - End of configuration. BUILD SUCCESSFUL Total time: 2 minutes 46 seconds Finished: SUCCESS