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Started by upstream project "BIOFORMATS-test-repo" build number 222 originally caused by: Started by upstream project "Trigger" build number 249 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@9 [BIOFORMATS-test-folder@9] $ /bin/bash -xe /tmp/jenkins10238371204659034031.sh + '[' specs = slidebook ']' ++ date +%u + '[' 3 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_35215_merge_ci -v /uod/idr/repos/curated/specs:/data -v /uod/idr-scratch/merge-ci/curated/specs:/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] 01:57:01,814 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 01:57:01,815 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - No custom configurators were discovered as a service. [testng] 01:57:01,815 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:57:01,816 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:57:01,816 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:57:01,816 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:57:01,817 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 0 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 01:57:01,817 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:57:01,817 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:57:01,817 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:57:01,818 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:57:01,818 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:57:01,970 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:57:01,970 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:57:01,990 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:57:01,990 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:57:01,995 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:57:01,995 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:57:01,995 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:57:01,995 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:57:01,995 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2e3967ea - End of configuration. [testng] 01:57:01,996 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@2e6a8155 - Registering current configuration as safe fallback point [testng] 01:57:01,997 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 180 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-10-16 01:57:02,004] [main] java.version = 17.0.2 [testng] 01:57:02,010 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:57:02,010 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:57:02,049 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-16_01-57-02.log] [testng] 01:57:02,051 |-INFO in ch.qos.logback.core.sift.SiftProcessor@798162bc - End of configuration. [testng] [2024-10-16 01:57:02,052] [main] testng.directory = /data [testng] [2024-10-16 01:57:02,053] [main] testng.configDirectory = /config [testng] [2024-10-16 01:57:02,061] [main] testng.multiplier = 1.0 [testng] [2024-10-16 01:57:02,061] [main] testng.in-memory = false [testng] [2024-10-16 01:57:02,062] [main] testng.allow-missing = false [testng] [2024-10-16 01:57:02,062] [main] user.language = en [testng] [2024-10-16 01:57:02,062] [main] user.country = ${user.country} [testng] [2024-10-16 01:57:02,062] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-10-16 02:36:38,460] [main] ---------------------------------------- [testng] [2024-10-16 02:36:38,460] [main] Total files: 226 [testng] [2024-10-16 02:36:38,460] [main] Scan time: 2376.398 s (10515 ms/file) [testng] [2024-10-16 02:36:38,460] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 28 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-10-16 03:38:01,711] [pool-1-thread-1] Initializing /data/fluoview/SpineAnimation.tif: [testng] 03:38:01,712 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 03:38:01,712 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:38:01,713 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-16_03-38-01.log] [testng] 03:38:01,714 |-INFO in ch.qos.logback.core.sift.SiftProcessor@429088cf - End of configuration. [testng] [2024-10-16 03:38:07,719] [pool-1-thread-12] Initializing /data/fluoview/Sample_XYZ.TIF: [testng] 03:38:07,719 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 03:38:07,719 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:38:07,720 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-10-16_03-38-07.log] [testng] 03:38:07,720 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1bcd7ea2 - End of configuration. [testng] [2024-10-16 03:38:13,560] [pool-1-thread-11] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test2.dm3: [testng] 03:38:13,560 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 03:38:13,560 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:38:13,561 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-10-16_03-38-13.log] [testng] 03:38:13,561 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5771f461 - End of configuration. [testng] [2024-10-16 03:38:14,833] [pool-1-thread-10] Initializing /data/iplab/Blend_Dapi.IPL: [testng] 03:38:14,833 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 03:38:14,833 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:38:14,833 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-16_03-38-14.log] [testng] 03:38:14,834 |-INFO in ch.qos.logback.core.sift.SiftProcessor@727a1e7a - End of configuration. [testng] [2024-10-16 03:38:15,839] [pool-1-thread-9] Initializing /data/iplab/Blend_Fitc.IPL: [testng] 03:38:15,839 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 03:38:15,839 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:38:15,840 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-16_03-38-15.log] [testng] 03:38:15,840 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6c63b372 - End of configuration. [testng] [2024-10-16 03:38:17,015] [pool-1-thread-8] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-2.lsm: [testng] 03:38:17,016 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 03:38:17,016 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:38:17,016 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-16_03-38-17.log] [testng] 03:38:17,017 |-INFO in ch.qos.logback.core.sift.SiftProcessor@16b972ac - End of configuration. [testng] [2024-10-16 03:38:22,553] [pool-1-thread-7] Initializing /data/iplab/Color Histology.IPL: [testng] 03:38:22,553 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 03:38:22,553 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:38:22,554 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-16_03-38-22.log] [testng] 03:38:22,554 |-INFO in ch.qos.logback.core.sift.SiftProcessor@35f6774d - End of configuration. [testng] [2024-10-16 03:38:23,460] [pool-1-thread-6] Initializing /data/iplab/Blend_Final.IPL: [testng] 03:38:23,461 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 03:38:23,461 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:38:23,461 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-16_03-38-23.log] [testng] 03:38:23,462 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7a994f56 - End of configuration. [testng] [2024-10-16 03:38:24,362] [pool-1-thread-5] Initializing /data/fluoview/Sample_XT.tif: [testng] 03:38:24,362 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 03:38:24,362 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:38:24,362 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-16_03-38-24.log] [testng] 03:38:24,363 |-INFO in ch.qos.logback.core.sift.SiftProcessor@67bee2ae - End of configuration. [testng] [2024-10-16 03:38:30,561] [pool-1-thread-4] Initializing /data/iplab/Blend_DIC.IPL: [testng] 03:38:30,561 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 03:38:30,561 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:38:30,562 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-16_03-38-30.log] [testng] 03:38:30,562 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6efd9437 - End of configuration. [testng] [2024-10-16 03:38:31,806] [pool-1-thread-3] Initializing /data/fluoview/sample_labled_XYTCh.tif: [testng] 03:38:31,806 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 03:38:31,806 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:38:31,807 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-16_03-38-31.log] [testng] 03:38:31,807 |-INFO in ch.qos.logback.core.sift.SiftProcessor@18349045 - End of configuration. [testng] [2024-10-16 03:38:37,625] [pool-1-thread-2] Initializing /data/iplab/16Bit XRay.IPL: [testng] 03:38:37,625 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 03:38:37,625 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:38:37,625 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-16_03-38-37.log] [testng] 03:38:37,626 |-INFO in ch.qos.logback.core.sift.SiftProcessor@678c12e4 - End of configuration. [testng] [2024-10-16 03:38:51,584] [pool-1-thread-2] Initializing /data/iplab/Actin.IPL: [testng] [2024-10-16 03:38:52,646] [pool-1-thread-7] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile--MultiTrack-1.lsm: [testng] [2024-10-16 03:38:58,057] [pool-1-thread-6] Initializing /data/iplab/3t3 Cell.IPL: [testng] [2024-10-16 03:38:58,915] [pool-1-thread-10] Initializing /data/fluoview/SpineAnimation.avi: [testng] [2024-10-16 03:39:00,880] [pool-1-thread-9] Initializing /data/iplab/Color Image.IPL: [testng] [2024-10-16 03:39:01,976] [pool-1-thread-4] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/test3.dm3: [testng] [2024-10-16 03:39:04,395] [pool-1-thread-11] Initializing /data/fluoview/Sample_XYT.TIF: [testng] [2024-10-16 03:39:17,721] [pool-1-thread-6] Initializing /data/fluoview/Sample_TwoCH.TIF: [testng] [2024-10-16 03:39:23,957] [pool-1-thread-9] Initializing /data/iplab/10x Blood and Bacteria.IPL: [testng] [2024-10-16 03:39:25,119] [pool-1-thread-2] Initializing /data/iplab/Chromosomes.IPL: [testng] [2024-10-16 03:39:26,436] [pool-1-thread-4] Initializing /data/iplab/Blend_Tritc.IPL: [testng] [2024-10-16 03:39:29,295] [pool-1-thread-10] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-1.lsm: [testng] [2024-10-16 03:39:35,644] [pool-1-thread-5] Initializing /data/fluoview/sample_labled_XYZTCh.tif: [testng] [2024-10-16 03:39:42,352] [pool-1-thread-3] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test.dm3: [testng] [2024-10-16 03:39:43,851] [pool-1-thread-1] Initializing /data/fluoview/sample_labled_XYZCh.tif: [testng] [2024-10-16 03:39:50,323] [pool-1-thread-12] Initializing /data/fluoview/Sample_ThreeCH.TIF: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1484, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 104 minutes 4 seconds Finished: SUCCESS