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Started by upstream project "BIOFORMATS-test-repo" build number 362 originally caused by: Started by upstream project "Trigger" build number 388 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@6 [BIOFORMATS-test-folder@6] $ /bin/bash -xe /tmp/jenkins2968655129540765128.sh + '[' leica-tcs = slidebook ']' ++ date +%u + '[' 7 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_57776_merge_ci -v /uod/idr/repos/curated/leica-tcs:/data -v /uod/idr-scratch/merge-ci/curated/leica-tcs:/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] 03:53:48,528 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15 [testng] 03:53:48,529 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - No custom configurators were discovered as a service. [testng] 03:53:48,529 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 03:53:48,530 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 03:53:48,531 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 03:53:48,531 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 03:53:48,531 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 03:53:48,531 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 03:53:48,532 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 03:53:48,532 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 03:53:48,532 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 03:53:48,533 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 03:53:48,700 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 03:53:48,700 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 03:53:48,723 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 03:53:48,723 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 03:53:48,729 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 03:53:48,729 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 03:53:48,729 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 03:53:48,730 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 03:53:48,730 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@3f6f6701 - End of configuration. [testng] 03:53:48,730 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@4f80542f - Registering current configuration as safe fallback point [testng] 03:53:48,730 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 198 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-03-02 03:53:48,739] [main] java.version = 17.0.2 [testng] 03:53:48,743 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 03:53:48,743 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:53:48,789 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-03-02_03-53-48.log] [testng] 03:53:48,791 |-INFO in ch.qos.logback.core.sift.SiftProcessor@14bdbc74 - End of configuration. [testng] [2025-03-02 03:53:48,794] [main] testng.directory = /data [testng] [2025-03-02 03:53:48,794] [main] testng.configDirectory = /config [testng] [2025-03-02 03:53:48,807] [main] testng.multiplier = 1.0 [testng] [2025-03-02 03:53:48,808] [main] testng.in-memory = false [testng] [2025-03-02 03:53:48,809] [main] testng.allow-missing = false [testng] [2025-03-02 03:53:48,809] [main] user.language = en [testng] [2025-03-02 03:53:48,809] [main] user.country = ${user.country} [testng] [2025-03-02 03:53:48,809] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2025-03-02 03:54:05,546] [main] ---------------------------------------- [testng] [2025-03-02 03:54:05,546] [main] Total files: 944 [testng] [2025-03-02 03:54:05,546] [main] Scan time: 16.737 s (17 ms/file) [testng] [2025-03-02 03:54:05,546] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 15 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-03-02 03:55:47,392] [pool-1-thread-1] Initializing /data/brian/Series002_z01.tif: [testng] 03:55:47,392 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 03:55:47,392 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:55:47,393 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-03-02_03-55-47.log] [testng] 03:55:47,394 |-INFO in ch.qos.logback.core.sift.SiftProcessor@56a908ac - End of configuration. [testng] [2025-03-02 03:55:49,183] [pool-1-thread-12] Initializing /data/martin/Series028_z00_ch00.tif: [testng] 03:55:49,183 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 03:55:49,183 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:55:49,184 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-03-02_03-55-49.log] [testng] 03:55:49,184 |-INFO in ch.qos.logback.core.sift.SiftProcessor@56c73bfd - End of configuration. [testng] [2025-03-02 03:55:50,807] [pool-1-thread-11] Initializing /data/stjude/AntoDay1cy3/c01f0001.TIF: [testng] 03:55:50,808 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 03:55:50,808 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:55:50,809 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-03-02_03-55-50.log] [testng] 03:55:50,809 |-INFO in ch.qos.logback.core.sift.SiftProcessor@463c8918 - End of configuration. [testng] [2025-03-02 03:55:51,929] [pool-1-thread-10] Initializing /data/stjude/AntoDay4dblmyGRP.tif: [testng] 03:55:51,930 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 03:55:51,930 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:55:51,930 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-03-02_03-55-51.log] [testng] 03:55:51,931 |-INFO in ch.qos.logback.core.sift.SiftProcessor@79e403c7 - End of configuration. [testng] [2025-03-02 03:55:53,133] [pool-1-thread-9] Initializing /data/dave/series 35/042911_Series035_t00_z000_ch00.tif: [testng] 03:55:53,133 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 03:55:53,133 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:55:53,134 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-03-02_03-55-53.log] [testng] 03:55:53,134 |-INFO in ch.qos.logback.core.sift.SiftProcessor@79ff3d58 - End of configuration. [testng] [2025-03-02 03:56:50,013] [pool-1-thread-8] Initializing /data/stjude/Antoday1dblmysglGRP.tif: [testng] 03:56:50,014 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 03:56:50,014 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:56:50,015 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-03-02_03-56-50.log] [testng] 03:56:50,015 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3a66aac - End of configuration. [testng] [2025-03-02 03:56:53,055] [pool-1-thread-7] Initializing /data/stjude/AntoDayzerocy3OVP.tif: [testng] 03:56:53,055 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 03:56:53,055 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:56:53,056 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-03-02_03-56-53.log] [testng] 03:56:53,056 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6216f21a - End of configuration. [testng] [2025-03-02 03:56:55,008] [pool-1-thread-6] Initializing /data/brian/Series002_z00_ch00.tif: [testng] 03:56:55,008 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 03:56:55,008 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:56:55,009 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-03-02_03-56-55.log] [testng] 03:56:55,009 |-INFO in ch.qos.logback.core.sift.SiftProcessor@bb40c74 - End of configuration. [testng] [2025-03-02 03:56:56,278] [pool-1-thread-5] Initializing /data/stjude/AntoDay4dblmy2GRP.tif: [testng] 03:56:56,278 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 03:56:56,278 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:56:56,279 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-03-02_03-56-56.log] [testng] 03:56:56,279 |-INFO in ch.qos.logback.core.sift.SiftProcessor@31f1f163 - End of configuration. [testng] [2025-03-02 03:56:57,609] [pool-1-thread-4] Initializing /data/stjude/AntoDay4dblcatdataGRP.tif: [testng] 03:56:57,609 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 03:56:57,609 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:56:57,610 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-03-02_03-56-57.log] [testng] 03:56:57,610 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36d3ba08 - End of configuration. [testng] [2025-03-02 03:56:59,117] [pool-1-thread-3] Initializing /data/stjude/AntoDay1dblGRP.tif: [testng] 03:56:59,117 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 03:56:59,117 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:56:59,117 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-03-02_03-56-59.log] [testng] 03:56:59,118 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5ad472fa - End of configuration. [testng] [2025-03-02 03:57:00,525] [pool-1-thread-2] Initializing /data/primate/Leica_Image.tif: [testng] 03:57:00,525 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 03:57:00,525 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:57:00,526 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-03-02_03-57-00.log] [testng] 03:57:00,526 |-INFO in ch.qos.logback.core.sift.SiftProcessor@57c44bf6 - End of configuration. [testng] [2025-03-02 03:57:10,666] [pool-1-thread-11] Initializing /data/stjude/AntoDayzerocy3GRP.tif: [testng] [2025-03-02 03:57:12,857] [pool-1-thread-2] Initializing /data/stjude/Antoday1dblcat2dataGRP.tif: [testng] [2025-03-02 03:57:15,881] [pool-1-thread-1] Initializing /data/stjude/Antoday1dblcatsglGRP.tif: [testng] 05:15:17,680 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 05:15:17,680 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:15:17,681 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-03-02_05-15-17.log] [testng] 05:15:17,682 |-INFO in ch.qos.logback.core.sift.SiftProcessor@33eb6758 - End of configuration. [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 795, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 81 minutes 33 seconds Finished: SUCCESS