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Started by upstream project "BIOFORMATS-test-repo" build number 291 originally caused by: Started by upstream project "Trigger" build number 310 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@2 [BIOFORMATS-test-folder@2] $ /bin/bash -xe /tmp/jenkins13164787651470331041.sh + '[' cv7000 = slidebook ']' ++ date +%u + '[' 7 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_45977_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] 02:43:07,505 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 02:43:07,507 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - No custom configurators were discovered as a service. [testng] 02:43:07,507 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:43:07,508 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:43:07,508 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 02:43:07,508 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 02:43:07,509 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 02:43:07,509 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:43:07,509 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:43:07,510 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 02:43:07,510 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 02:43:07,510 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 02:43:07,672 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:43:07,672 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:43:07,694 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:43:07,694 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:43:07,699 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:43:07,699 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:43:07,700 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:43:07,700 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:43:07,700 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2e3967ea - End of configuration. [testng] 02:43:07,701 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@2e6a8155 - Registering current configuration as safe fallback point [testng] 02:43:07,701 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 192 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-12-15 02:43:07,710] [main] java.version = 17.0.2 [testng] 02:43:07,713 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:43:07,713 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:43:07,753 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-15_02-43-07.log] [testng] 02:43:07,754 |-INFO in ch.qos.logback.core.sift.SiftProcessor@798162bc - End of configuration. [testng] [2024-12-15 02:43:07,756] [main] testng.directory = /data [testng] [2024-12-15 02:43:07,757] [main] testng.configDirectory = /config [testng] [2024-12-15 02:43:07,765] [main] testng.multiplier = 1.0 [testng] [2024-12-15 02:43:07,766] [main] testng.in-memory = false [testng] [2024-12-15 02:43:07,766] [main] testng.allow-missing = false [testng] [2024-12-15 02:43:07,766] [main] user.language = en [testng] [2024-12-15 02:43:07,766] [main] user.country = ${user.country} [testng] [2024-12-15 02:43:07,766] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-12-15 02:55:09,214] [main] ---------------------------------------- [testng] [2024-12-15 02:55:09,215] [main] Total files: 31992 [testng] [2024-12-15 02:55:09,215] [main] Scan time: 721.448 s (22 ms/file) [testng] [2024-12-15 02:55:09,215] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 12 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-12-15 03:01:57,969] [pool-1-thread-1] Initializing /data/glencoe/DW 0001_20161111_100649/AssayPlate_Corning_#3683/AssayPlate_Corning_#3683.wpi: [testng] 03:01:57,970 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 03:01:57,970 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:01:57,971 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-15_03-01-57.log] [testng] 03:01:57,971 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3bd6c79c - End of configuration. [testng] [2024-12-15 03:02:03,309] [pool-1-thread-12] Initializing /data/samples/multi-action-z/test-plate.wpi: [testng] 03:02:03,309 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 03:02:03,310 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:02:03,311 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-15_03-02-03.log] [testng] 03:02:03,311 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7f5154c7 - End of configuration. [testng] [2024-12-15 03:02:10,261] [pool-1-thread-11] Initializing /data/nih/180521-OMERO-Multi-Test_20180521_134927/Test-plate-1/Test-plate-1.wpi: [testng] 03:02:10,262 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 03:02:10,262 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:02:10,263 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-15_03-02-10.log] [testng] 03:02:10,263 |-INFO in ch.qos.logback.core.sift.SiftProcessor@289d7cf3 - End of configuration. [testng] [2024-12-15 03:02:17,047] [pool-1-thread-10] Initializing /data/samples/channel-subset/AssayPlate_Corning_#3683.wpi: [testng] 03:02:17,048 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 03:02:17,048 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:02:17,048 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-15_03-02-17.log] [testng] 03:02:17,049 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21ccea5c - End of configuration. [testng] [2024-12-15 03:02:19,273] [pool-1-thread-9] Initializing /data/samples/sparse-channels/sparse.wpi: [testng] 03:02:19,273 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 03:02:19,273 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:02:19,274 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-15_03-02-19.log] [testng] 03:02:19,275 |-INFO in ch.qos.logback.core.sift.SiftProcessor@53125bd2 - End of configuration. [testng] [2024-12-15 03:02:26,931] [pool-1-thread-8] Initializing /data/public/idr0088/110000251230/110000251230.wpi: [testng] 03:02:26,931 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 03:02:26,931 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:02:26,932 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-15_03-02-26.log] [testng] 03:02:26,932 |-INFO in ch.qos.logback.core.sift.SiftProcessor@78ae702a - End of configuration. [testng] [2024-12-15 03:02:33,884] [pool-1-thread-7] Initializing /data/samples/extra-dirs/AssayPlate_Corning_#3683.wpi: [testng] 03:02:33,884 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 03:02:33,884 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:02:33,885 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-15_03-02-33.log] [testng] 03:02:33,886 |-INFO in ch.qos.logback.core.sift.SiftProcessor@28f8ff44 - End of configuration. [testng] [2024-12-15 03:02:35,991] [pool-1-thread-6] Initializing /data/glencoe/DW 0002_20161111_105720/AssayPlate_Corning_#3683/AssayPlate_Corning_#3683.wpi: [testng] 03:02:35,991 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 03:02:35,991 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:02:35,992 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-15_03-02-35.log] [testng] 03:02:35,992 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2bea5fe9 - End of configuration. [testng] [2024-12-15 03:02:38,287] [pool-1-thread-5] Initializing /data/public/idr0093/020/020.wpi: [testng] 03:02:38,287 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 03:02:38,287 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:02:38,288 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-15_03-02-38.log] [testng] 03:02:38,288 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6457d752 - End of configuration. [testng] [2024-12-15 03:03:10,654] [pool-1-thread-4] Initializing /data/samples/separate-image-directory/AssayPlate_Corning_#3683.wpi: [testng] 03:03:10,654 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 03:03:10,654 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:03:10,655 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-15_03-03-10.log] [testng] 03:03:10,655 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7cd84e67 - End of configuration. [testng] [2024-12-15 03:03:12,478] [pool-1-thread-3] Initializing /data/samples/multiple-actions-per-channel/test-plate.wpi: [testng] 03:03:12,478 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 03:03:12,478 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:03:12,479 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-15_03-03-12.log] [testng] 03:03:12,479 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3e3765d1 - End of configuration. [testng] [2024-12-15 03:03:20,852] [pool-1-thread-2] Initializing /data/glencoe/DW 0003_20161111_111619/AssayPlate_Corning_#3683/AssayPlate_Corning_#3683.wpi: [testng] 03:03:20,852 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 03:03:20,852 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:03:20,853 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-15_03-03-20.log] [testng] 03:03:20,853 |-INFO in ch.qos.logback.core.sift.SiftProcessor@18994c0d - End of configuration. [testng] 05:05:19,637 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 05:05:19,637 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:05:19,638 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-15_05-05-19.log] [testng] 05:05:19,638 |-INFO in ch.qos.logback.core.sift.SiftProcessor@236206f8 - 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: 142 minutes 17 seconds Finished: SUCCESS