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Started by upstream project "BIOFORMATS-test-repo" build number 131 originally caused by: Started by upstream project "Trigger" build number 148 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/jenkins8302846790262451567.sh + '[' cv7000 = slidebook ']' ++ date +%u + '[' 3 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_20537_merge_ci -v /uod/idr/repos/curated/cv7000:/data -v /uod/idr-scratch/merge-ci/curated/cv7000:/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] 1 warning 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] 01:42:29,794 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 01:42:29,795 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service. [testng] 01:42:29,795 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:42:29,796 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:42:29,796 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:42:29,797 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:42:29,797 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 01:42:29,797 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:42:29,797 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:42:29,798 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:42:29,798 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:42:29,799 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:42:29,968 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:42:29,968 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:42:29,991 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:42:29,992 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:42:29,997 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:42:29,998 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:42:29,998 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:42:29,998 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:42:29,998 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration. [testng] 01:42:29,999 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point [testng] 01:42:29,999 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 202 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-07-24 01:42:30,008] [main] java.version = 17.0.2 [testng] 01:42:30,011 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:42:30,012 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:42:30,054 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-07-24_01-42-30.log] [testng] 01:42:30,056 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration. [testng] [2024-07-24 01:42:30,058] [main] testng.directory = /data [testng] [2024-07-24 01:42:30,058] [main] testng.configDirectory = /config [testng] [2024-07-24 01:42:30,067] [main] testng.multiplier = 1.0 [testng] [2024-07-24 01:42:30,068] [main] testng.in-memory = false [testng] [2024-07-24 01:42:30,068] [main] testng.allow-missing = false [testng] [2024-07-24 01:42:30,068] [main] user.language = en [testng] [2024-07-24 01:42:30,068] [main] user.country = ${user.country} [testng] [2024-07-24 01:42:30,068] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-07-24 01:48:33,603] [main] ---------------------------------------- [testng] [2024-07-24 01:48:33,603] [main] Total files: 31992 [testng] [2024-07-24 01:48:33,603] [main] Scan time: 363.534 s (11 ms/file) [testng] [2024-07-24 01:48:33,603] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 12 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-07-24 01:48:52,412] [pool-1-thread-1] Initializing /data/samples/sparse-channels/sparse.wpi: [testng] 01:48:52,412 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:48:52,413 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:48:52,414 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-07-24_01-48-52.log] [testng] 01:48:52,414 |-INFO in ch.qos.logback.core.sift.SiftProcessor@17aa03ff - End of configuration. [testng] [2024-07-24 01:48:52,452] [pool-1-thread-12] Initializing /data/samples/channel-subset/AssayPlate_Corning_#3683.wpi: [testng] 01:48:52,452 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:48:52,452 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:48:52,453 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-07-24_01-48-52.log] [testng] 01:48:52,454 |-INFO in ch.qos.logback.core.sift.SiftProcessor@66097d85 - End of configuration. [testng] [2024-07-24 01:48:52,545] [pool-1-thread-11] Initializing /data/glencoe/DW 0001_20161111_100649/AssayPlate_Corning_#3683/AssayPlate_Corning_#3683.wpi: [testng] 01:48:52,546 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:48:52,546 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:48:52,547 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-07-24_01-48-52.log] [testng] 01:48:52,548 |-INFO in ch.qos.logback.core.sift.SiftProcessor@63c5e5cd - End of configuration. [testng] [2024-07-24 01:48:52,795] [pool-1-thread-10] Initializing /data/samples/separate-image-directory/AssayPlate_Corning_#3683.wpi: [testng] 01:48:52,795 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:48:52,795 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:48:52,796 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-07-24_01-48-52.log] [testng] 01:48:52,797 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1a4ee7eb - End of configuration. [testng] [2024-07-24 01:48:52,834] [pool-1-thread-9] Initializing /data/samples/multiple-actions-per-channel/test-plate.wpi: [testng] 01:48:52,834 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:48:52,834 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:48:52,835 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-07-24_01-48-52.log] [testng] 01:48:52,836 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1590c697 - End of configuration. [testng] [2024-07-24 01:48:53,578] [pool-1-thread-8] Initializing /data/samples/multi-action-z/test-plate.wpi: [testng] 01:48:53,578 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:48:53,578 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:48:53,579 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-07-24_01-48-53.log] [testng] 01:48:53,579 |-INFO in ch.qos.logback.core.sift.SiftProcessor@134e6b50 - End of configuration. [testng] [2024-07-24 01:48:54,199] [pool-1-thread-7] Initializing /data/samples/extra-dirs/AssayPlate_Corning_#3683.wpi: [testng] 01:48:54,199 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:48:54,199 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:48:54,200 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-07-24_01-48-54.log] [testng] 01:48:54,201 |-INFO in ch.qos.logback.core.sift.SiftProcessor@51b5b921 - End of configuration. [testng] [2024-07-24 01:48:54,241] [pool-1-thread-6] Initializing /data/public/idr0093/020/020.wpi: [testng] 01:48:54,241 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:48:54,241 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:48:54,244 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-07-24_01-48-54.log] [testng] 01:48:54,246 |-INFO in ch.qos.logback.core.sift.SiftProcessor@54c47db2 - End of configuration. [testng] [2024-07-24 01:48:56,234] [pool-1-thread-5] Initializing /data/nih/180521-OMERO-Multi-Test_20180521_134927/Test-plate-1/Test-plate-1.wpi: [testng] 01:48:56,235 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:48:56,235 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:48:56,235 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-07-24_01-48-56.log] [testng] 01:48:56,236 |-INFO in ch.qos.logback.core.sift.SiftProcessor@79b3feb5 - End of configuration. [testng] [2024-07-24 01:48:56,840] [pool-1-thread-4] Initializing /data/public/idr0088/110000251230/110000251230.wpi: [testng] 01:48:56,841 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:48:56,841 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:48:56,841 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-07-24_01-48-56.log] [testng] 01:48:56,842 |-INFO in ch.qos.logback.core.sift.SiftProcessor@47110d20 - End of configuration. [testng] [2024-07-24 01:48:57,065] [pool-1-thread-3] Initializing /data/glencoe/DW 0003_20161111_111619/AssayPlate_Corning_#3683/AssayPlate_Corning_#3683.wpi: [testng] 01:48:57,065 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:48:57,065 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:48:57,066 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-07-24_01-48-57.log] [testng] 01:48:57,067 |-INFO in ch.qos.logback.core.sift.SiftProcessor@42494378 - End of configuration. [testng] [2024-07-24 01:48:57,123] [pool-1-thread-2] Initializing /data/glencoe/DW 0002_20161111_105720/AssayPlate_Corning_#3683/AssayPlate_Corning_#3683.wpi: [testng] 01:48:57,123 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:48:57,123 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:48:57,124 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-07-24_01-48-57.log] [testng] 01:48:57,124 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7618e223 - End of configuration. [testng] 03:36:26,422 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 03:36:26,422 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:36:26,423 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-07-24_03-36-26.log] [testng] 03:36:26,423 |-INFO in ch.qos.logback.core.sift.SiftProcessor@169d5567 - End of configuration. [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 636, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 114 minutes 0 seconds Finished: SUCCESS