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Started by upstream project "BIOFORMATS-test-repo" build number 284 originally caused by: Started by upstream project "Trigger" build number 303 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/jenkins6878756678142165737.sh + '[' specs = slidebook ']' ++ date +%u + '[' 7 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_44792_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] 00:29:00,410 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 00:29:00,412 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - No custom configurators were discovered as a service. [testng] 00:29:00,412 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:29:00,413 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:29:00,413 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 00:29:00,414 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 00:29:00,414 |-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] 00:29:00,414 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:29:00,414 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:29:00,415 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 00:29:00,415 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 00:29:00,415 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 00:29:00,593 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 00:29:00,593 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 00:29:00,619 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 00:29:00,619 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 00:29:00,625 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 00:29:00,626 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 00:29:00,626 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 00:29:00,626 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 00:29:00,626 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2e3967ea - End of configuration. [testng] 00:29:00,627 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@2e6a8155 - Registering current configuration as safe fallback point [testng] 00:29:00,627 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 213 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-12-08 00:29:00,637] [main] java.version = 17.0.2 [testng] 00:29:00,641 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 00:29:00,641 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:00,686 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-08_00-29-00.log] [testng] 00:29:00,688 |-INFO in ch.qos.logback.core.sift.SiftProcessor@798162bc - End of configuration. [testng] [2024-12-08 00:29:00,690] [main] testng.directory = /data [testng] [2024-12-08 00:29:00,690] [main] testng.configDirectory = /config [testng] [2024-12-08 00:29:00,700] [main] testng.multiplier = 1.0 [testng] [2024-12-08 00:29:00,701] [main] testng.in-memory = false [testng] [2024-12-08 00:29:00,701] [main] testng.allow-missing = false [testng] [2024-12-08 00:29:00,701] [main] user.language = en [testng] [2024-12-08 00:29:00,701] [main] user.country = ${user.country} [testng] [2024-12-08 00:29:00,701] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-12-08 00:32:47,461] [main] ---------------------------------------- [testng] [2024-12-08 00:32:47,462] [main] Total files: 226 [testng] [2024-12-08 00:32:47,462] [main] Scan time: 226.76 s (1003 ms/file) [testng] [2024-12-08 00:32:47,462] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 28 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-12-08 00:34:48,053] [pool-1-thread-1] Initializing /data/fluoview/SpineAnimation.tif: [testng] 00:34:48,054 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 00:34:48,054 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:34:48,055 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-08_00-34-48.log] [testng] 00:34:48,055 |-INFO in ch.qos.logback.core.sift.SiftProcessor@71142672 - End of configuration. [testng] [2024-12-08 00:34:48,362] [pool-1-thread-12] Initializing /data/fluoview/Sample_XYZ.TIF: [testng] 00:34:48,362 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 00:34:48,362 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:34:48,363 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-08_00-34-48.log] [testng] 00:34:48,364 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6017a6cb - End of configuration. [testng] [2024-12-08 00:34:48,636] [pool-1-thread-11] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test2.dm3: [testng] 00:34:48,636 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 00:34:48,637 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:34:48,637 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-08_00-34-48.log] [testng] 00:34:48,638 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1d5bb5b4 - End of configuration. [testng] [2024-12-08 00:34:48,698] [pool-1-thread-10] Initializing /data/iplab/Blend_Dapi.IPL: [testng] 00:34:48,698 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 00:34:48,698 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:34:48,698 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-08_00-34-48.log] [testng] 00:34:48,699 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21f620b9 - End of configuration. [testng] [2024-12-08 00:34:48,741] [pool-1-thread-9] Initializing /data/iplab/Blend_Fitc.IPL: [testng] 00:34:48,741 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 00:34:48,741 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:34:48,742 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-08_00-34-48.log] [testng] 00:34:48,743 |-INFO in ch.qos.logback.core.sift.SiftProcessor@90076a9 - End of configuration. [testng] [2024-12-08 00:34:48,781] [pool-1-thread-8] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-2.lsm: [testng] 00:34:48,782 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 00:34:48,782 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:34:48,782 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-08_00-34-48.log] [testng] 00:34:48,783 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5b549d02 - End of configuration. [testng] [2024-12-08 00:34:49,013] [pool-1-thread-7] Initializing /data/iplab/Color Histology.IPL: [testng] 00:34:49,013 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 00:34:49,013 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:34:49,014 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-08_00-34-49.log] [testng] 00:34:49,014 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1483c1a3 - End of configuration. [testng] [2024-12-08 00:34:49,054] [pool-1-thread-6] Initializing /data/iplab/Blend_Final.IPL: [testng] 00:34:49,054 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 00:34:49,054 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:34:49,055 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-08_00-34-49.log] [testng] 00:34:49,055 |-INFO in ch.qos.logback.core.sift.SiftProcessor@79cd85b4 - End of configuration. [testng] [2024-12-08 00:34:49,099] [pool-1-thread-5] Initializing /data/fluoview/Sample_XT.tif: [testng] 00:34:49,099 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 00:34:49,099 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:34:49,100 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-08_00-34-49.log] [testng] 00:34:49,100 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6fde1eb4 - End of configuration. [testng] [2024-12-08 00:34:49,496] [pool-1-thread-4] Initializing /data/iplab/Blend_DIC.IPL: [testng] 00:34:49,497 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 00:34:49,497 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:34:49,498 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-08_00-34-49.log] [testng] 00:34:49,498 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5e25a766 - End of configuration. [testng] [2024-12-08 00:34:49,569] [pool-1-thread-3] Initializing /data/fluoview/sample_labled_XYTCh.tif: [testng] 00:34:49,570 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 00:34:49,570 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:34:49,570 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-08_00-34-49.log] [testng] 00:34:49,571 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1cf6da95 - End of configuration. [testng] [2024-12-08 00:34:49,928] [pool-1-thread-2] Initializing /data/iplab/16Bit XRay.IPL: [testng] 00:34:49,928 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 00:34:49,928 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:34:49,929 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-08_00-34-49.log] [testng] 00:34:49,930 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4ccb10f - End of configuration. [testng] [2024-12-08 00:34:52,987] [pool-1-thread-7] Initializing /data/iplab/Actin.IPL: [testng] [2024-12-08 00:34:53,684] [pool-1-thread-6] Initializing /data/fluoview/Sample_XYT.TIF: [testng] [2024-12-08 00:34:54,731] [pool-1-thread-2] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile--MultiTrack-1.lsm: [testng] [2024-12-08 00:34:55,079] [pool-1-thread-4] Initializing /data/iplab/3t3 Cell.IPL: [testng] [2024-12-08 00:34:55,138] [pool-1-thread-9] Initializing /data/fluoview/SpineAnimation.avi: [testng] [2024-12-08 00:34:55,288] [pool-1-thread-10] Initializing /data/iplab/Color Image.IPL: [testng] [2024-12-08 00:34:55,364] [pool-1-thread-11] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/test3.dm3: [testng] [2024-12-08 00:34:56,799] [pool-1-thread-7] Initializing /data/fluoview/Sample_TwoCH.TIF: [testng] [2024-12-08 00:34:57,287] [pool-1-thread-4] Initializing /data/iplab/10x Blood and Bacteria.IPL: [testng] [2024-12-08 00:34:57,411] [pool-1-thread-10] Initializing /data/iplab/Chromosomes.IPL: [testng] [2024-12-08 00:34:57,546] [pool-1-thread-11] Initializing /data/iplab/Blend_Tritc.IPL: [testng] [2024-12-08 00:34:57,802] [pool-1-thread-3] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-1.lsm: [testng] [2024-12-08 00:34:58,359] [pool-1-thread-1] Initializing /data/fluoview/Sample_ThreeCH.TIF: [testng] [2024-12-08 00:34:58,954] [pool-1-thread-12] Initializing /data/fluoview/sample_labled_XYZTCh.tif: [testng] [2024-12-08 00:34:59,210] [pool-1-thread-5] Initializing /data/fluoview/sample_labled_XYZCh.tif: [testng] [2024-12-08 00:34:59,952] [pool-1-thread-10] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test.dm3: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1484, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 6 minutes 9 seconds Finished: SUCCESS