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Started by upstream project "BIOFORMATS-test-repo" build number 110 originally caused by: Started by upstream project "Trigger" build number 123 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder [BIOFORMATS-test-folder] $ /bin/bash -xe /tmp/jenkins2475631645340411624.sh + '[' cv7000 = slidebook ']' ++ date +%u + '[' 3 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_17093_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] 01:40:18,660 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 01:40:18,661 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service. [testng] 01:40:18,661 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:40:18,662 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:40:18,663 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:40:18,663 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:40:18,664 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 2 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 01:40:18,664 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:40:18,664 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:40:18,665 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:40:18,665 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:40:18,665 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:40:18,821 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:40:18,821 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:40:18,842 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:40:18,842 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:40:18,847 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:40:18,847 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:40:18,847 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:40:18,848 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:40:18,848 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration. [testng] 01:40:18,849 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point [testng] 01:40:18,849 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 185 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-07-03 01:40:18,857] [main] java.version = 17.0.2 [testng] 01:40:18,860 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:40:18,860 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:40:18,898 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-07-03_01-40-18.log] [testng] 01:40:18,900 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration. [testng] [2024-07-03 01:40:18,902] [main] testng.directory = /data [testng] [2024-07-03 01:40:18,902] [main] testng.configDirectory = /config [testng] [2024-07-03 01:40:18,910] [main] testng.multiplier = 1.0 [testng] [2024-07-03 01:40:18,911] [main] testng.in-memory = false [testng] [2024-07-03 01:40:18,911] [main] testng.allow-missing = false [testng] [2024-07-03 01:40:18,911] [main] user.language = en [testng] [2024-07-03 01:40:18,911] [main] user.country = ${user.country} [testng] [2024-07-03 01:40:18,911] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-07-03 01:46:05,474] [main] ---------------------------------------- [testng] [2024-07-03 01:46:05,474] [main] Total files: 31992 [testng] [2024-07-03 01:46:05,475] [main] Scan time: 346.563 s (10 ms/file) [testng] [2024-07-03 01:46:05,475] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 12 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-07-03 01:46:25,618] [pool-1-thread-1] Initializing /data/samples/sparse-channels/sparse.wpi: [testng] 01:46:25,618 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:46:25,619 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:46:25,620 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-07-03_01-46-25.log] [testng] 01:46:25,621 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1ceabb95 - End of configuration. [testng] [2024-07-03 01:46:25,683] [pool-1-thread-12] Initializing /data/samples/channel-subset/AssayPlate_Corning_#3683.wpi: [testng] 01:46:25,683 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:46:25,683 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:46:25,684 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-07-03_01-46-25.log] [testng] 01:46:25,685 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3fa70e4f - End of configuration. [testng] [2024-07-03 01:46:25,812] [pool-1-thread-11] Initializing /data/glencoe/DW 0001_20161111_100649/AssayPlate_Corning_#3683/AssayPlate_Corning_#3683.wpi: [testng] 01:46:25,812 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:46:25,812 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:46:25,813 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-07-03_01-46-25.log] [testng] 01:46:25,814 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1d6395a2 - End of configuration. [testng] [2024-07-03 01:46:26,005] [pool-1-thread-10] Initializing /data/samples/separate-image-directory/AssayPlate_Corning_#3683.wpi: [testng] 01:46:26,006 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:46:26,006 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:46:26,007 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-07-03_01-46-26.log] [testng] 01:46:26,008 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7aa673e4 - End of configuration. [testng] [2024-07-03 01:46:26,051] [pool-1-thread-9] Initializing /data/samples/multiple-actions-per-channel/test-plate.wpi: [testng] 01:46:26,051 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:46:26,051 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:46:26,054 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-07-03_01-46-26.log] [testng] 01:46:26,055 |-INFO in ch.qos.logback.core.sift.SiftProcessor@148ded20 - End of configuration. [testng] [2024-07-03 01:46:26,851] [pool-1-thread-8] Initializing /data/samples/multi-action-z/test-plate.wpi: [testng] 01:46:26,852 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:46:26,852 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:46:26,853 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-07-03_01-46-26.log] [testng] 01:46:26,854 |-INFO in ch.qos.logback.core.sift.SiftProcessor@64137260 - End of configuration. [testng] [2024-07-03 01:46:27,616] [pool-1-thread-7] Initializing /data/samples/extra-dirs/AssayPlate_Corning_#3683.wpi: [testng] 01:46:27,617 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:46:27,617 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:46:27,618 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-07-03_01-46-27.log] [testng] 01:46:27,618 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4c283b8f - End of configuration. [testng] [2024-07-03 01:46:27,652] [pool-1-thread-6] Initializing /data/public/idr0093/020/020.wpi: [testng] 01:46:27,653 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:46:27,653 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:46:27,654 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-07-03_01-46-27.log] [testng] 01:46:27,655 |-INFO in ch.qos.logback.core.sift.SiftProcessor@19b89d22 - End of configuration. [testng] [2024-07-03 01:46:29,487] [pool-1-thread-5] Initializing /data/nih/180521-OMERO-Multi-Test_20180521_134927/Test-plate-1/Test-plate-1.wpi: [testng] 01:46:29,488 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:46:29,488 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:46:29,489 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-07-03_01-46-29.log] [testng] 01:46:29,490 |-INFO in ch.qos.logback.core.sift.SiftProcessor@78ae702a - End of configuration. [testng] [2024-07-03 01:46:30,236] [pool-1-thread-4] Initializing /data/public/idr0088/110000251230/110000251230.wpi: [testng] 01:46:30,237 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:46:30,237 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:46:30,238 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-07-03_01-46-30.log] [testng] 01:46:30,239 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1a4ee7eb - End of configuration. [testng] [2024-07-03 01:46:30,401] [pool-1-thread-3] Initializing /data/glencoe/DW 0003_20161111_111619/AssayPlate_Corning_#3683/AssayPlate_Corning_#3683.wpi: [testng] 01:46:30,401 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:46:30,401 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:46:30,402 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-07-03_01-46-30.log] [testng] 01:46:30,403 |-INFO in ch.qos.logback.core.sift.SiftProcessor@54c47db2 - End of configuration. [testng] [2024-07-03 01:46:30,442] [pool-1-thread-2] Initializing /data/glencoe/DW 0002_20161111_105720/AssayPlate_Corning_#3683/AssayPlate_Corning_#3683.wpi: [testng] 01:46:30,442 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:46:30,442 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:46:30,443 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-07-03_01-46-30.log] [testng] 01:46:30,444 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3e6e8b1f - End of configuration. [testng] 03:37:53,524 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 03:37:53,524 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:37:53,525 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-07-03_03-37-53.log] [testng] 03:37:53,525 |-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: 117 minutes 39 seconds Finished: SUCCESS