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Started by upstream project "BIOFORMATS-test-repo" build number 208 originally caused by: Started by upstream project "Trigger" build number 234 originally caused by: Started by timer 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/jenkins16446305166561504759.sh + '[' nrrd = slidebook ']' ++ date +%u + '[' 4 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_33055_merge_ci -v /uod/idr/repos/curated/nrrd:/data -v /uod/idr-scratch/merge-ci/curated/nrrd:/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warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] warning: [options] source value 8 is obsolete and will be removed in a future release [javac] warning: [options] target value 8 is obsolete and will be removed in a future release [javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options. [javac] 4 warnings 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] 03:52:12,519 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 03:52:12,520 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - No custom configurators were discovered as a service. [testng] 03:52:12,520 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 03:52:12,521 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 03:52:12,521 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 03:52:12,522 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 03:52:12,522 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 03:52:12,522 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 03:52:12,522 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 03:52:12,523 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 03:52:12,523 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 03:52:12,524 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 03:52:12,684 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 03:52:12,684 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 03:52:12,710 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 03:52:12,710 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 03:52:12,716 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 03:52:12,716 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 03:52:12,717 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 03:52:12,717 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 03:52:12,717 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@d9345cd - End of configuration. [testng] 03:52:12,718 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@48aca48b - Registering current configuration as safe fallback point [testng] 03:52:12,718 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 196 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-10-03 03:52:12,727] [main] java.version = 21 [testng] 03:52:12,730 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 03:52:12,730 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:52:12,772 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-03_03-52-12.log] [testng] 03:52:12,773 |-INFO in ch.qos.logback.core.sift.SiftProcessor@71687585 - End of configuration. [testng] [2024-10-03 03:52:12,775] [main] testng.directory = /data [testng] [2024-10-03 03:52:12,775] [main] testng.configDirectory = /config [testng] [2024-10-03 03:52:12,784] [main] testng.multiplier = 1.0 [testng] [2024-10-03 03:52:12,784] [main] testng.in-memory = false [testng] [2024-10-03 03:52:12,784] [main] testng.allow-missing = false [testng] [2024-10-03 03:52:12,784] [main] user.language = en [testng] [2024-10-03 03:52:12,784] [main] user.country = ${user.country} [testng] [2024-10-03 03:52:12,784] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-10-03 03:53:59,033] [main] ---------------------------------------- [testng] [2024-10-03 03:53:59,034] [main] Total files: 14 [testng] [2024-10-03 03:53:59,034] [main] Scan time: 106.248 s (7589 ms/file) [testng] [2024-10-03 03:53:59,034] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 10 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-10-03 03:54:03,743] [pool-1-thread-1] Initializing /data/public/gordon/gk2-rcc-mask2.nhdr: [testng] 03:54:03,743 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 03:54:03,743 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:54:03,745 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-03_03-54-03.log] [testng] 03:54:03,745 |-INFO in ch.qos.logback.core.sift.SiftProcessor@137a207b - End of configuration. [testng] [2024-10-03 03:54:03,958] [pool-1-thread-10] Initializing /data/public/gordon/gk2-rcc-mask.nhdr: [testng] 03:54:03,958 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 03:54:03,958 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:54:03,959 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-03_03-54-03.log] [testng] 03:54:03,960 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5a3ef4bd - End of configuration. [testng] [2024-10-03 03:54:04,164] [pool-1-thread-9] Initializing /data/public/glencoe/gzip/dt-helix.nrrd.gz: [testng] 03:54:04,164 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 03:54:04,164 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:54:04,165 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-03_03-54-04.log] [testng] 03:54:04,165 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3a29a47e - End of configuration. [testng] [2024-10-03 03:54:04,642] [pool-1-thread-8] Initializing /data/carlos/big4DImage.nrrd: [testng] 03:54:04,642 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 03:54:04,642 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:54:04,643 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-03_03-54-04.log] [testng] 03:54:04,643 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3f250c58 - End of configuration. [testng] [2024-10-03 03:54:04,850] [pool-1-thread-7] Initializing /data/public/glencoe/version4/dt-helix.nhdr: [testng] 03:54:04,850 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 03:54:04,850 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:54:04,851 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-03_03-54-04.log] [testng] 03:54:04,851 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6e3d2b36 - End of configuration. [testng] [2024-10-03 03:54:05,049] [pool-1-thread-6] Initializing /data/public/gordon/dt-helix.nhdr: [testng] 03:54:05,049 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 03:54:05,049 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:54:05,050 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-03_03-54-05.log] [testng] 03:54:05,050 |-INFO in ch.qos.logback.core.sift.SiftProcessor@244de6f1 - End of configuration. [testng] [2024-10-03 03:54:05,257] [pool-1-thread-5] Initializing /data/greg/average-goodbrains-warp40-5_e1e-2.PIC.nhdr: [testng] 03:54:05,257 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 03:54:05,257 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:54:05,258 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-03_03-54-05.log] [testng] 03:54:05,258 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1b4d1213 - End of configuration. [testng] [2024-10-03 03:54:05,453] [pool-1-thread-4] Initializing /data/greg/average-goodbrains-warp40-5_e1e-2.PIC.gz.nhdr: [testng] 03:54:05,453 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 03:54:05,454 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:54:05,454 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-03_03-54-05.log] [testng] 03:54:05,455 |-INFO in ch.qos.logback.core.sift.SiftProcessor@78e562ef - End of configuration. [testng] [2024-10-03 03:54:05,649] [pool-1-thread-3] Initializing /data/public/midas/01011-dwi.nhdr: [testng] 03:54:05,649 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 03:54:05,649 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:54:05,649 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-03_03-54-05.log] [testng] 03:54:05,650 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3a9ed675 - End of configuration. [testng] [2024-10-03 03:54:05,882] [pool-1-thread-2] Initializing /data/greg/average-goodbrains-warp40-5_e1e-2.am.nrrd: [testng] 03:54:05,882 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 03:54:05,882 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:54:05,883 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-03_03-54-05.log] [testng] 03:54:05,883 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2e3c02cf - End of configuration. [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 530, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 3 minutes 38 seconds Finished: SUCCESS