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Started by upstream project "BIOFORMATS-test-repo" build number 71 originally caused by: Started by upstream project "Trigger" build number 79 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@3 [BIOFORMATS-test-folder@3] $ /bin/bash -xe /tmp/jenkins12621403177842410243.sh + '[' specs = slidebook ']' ++ date +%u + '[' 3 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_10660_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] 03:54:14,777 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 03:54:14,779 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service. [testng] 03:54:14,779 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 03:54:14,780 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 03:54:14,781 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 03:54:14,782 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 03:54:14,782 |-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] 03:54:14,782 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 03:54:14,783 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 03:54:14,784 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 03:54:14,784 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 03:54:14,784 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 03:54:14,999 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 03:54:14,999 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 03:54:15,021 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 03:54:15,021 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 03:54:15,027 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 03:54:15,027 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 03:54:15,027 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 03:54:15,027 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 03:54:15,027 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration. [testng] 03:54:15,028 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point [testng] 03:54:15,028 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 245 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-05-22 03:54:15,037] [main] java.version = 17.0.2 [testng] 03:54:15,040 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 03:54:15,040 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:54:15,081 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-05-22_03-54-15.log] [testng] 03:54:15,082 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration. [testng] [2024-05-22 03:54:15,084] [main] testng.directory = /data [testng] [2024-05-22 03:54:15,084] [main] testng.configDirectory = /config [testng] [2024-05-22 03:54:15,092] [main] testng.multiplier = 1.0 [testng] [2024-05-22 03:54:15,093] [main] testng.in-memory = false [testng] [2024-05-22 03:54:15,094] [main] testng.allow-missing = false [testng] [2024-05-22 03:54:15,094] [main] user.language = en [testng] [2024-05-22 03:54:15,094] [main] user.country = ${user.country} [testng] [2024-05-22 03:54:15,094] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-05-22 03:54:26,180] [main] ---------------------------------------- [testng] [2024-05-22 03:54:26,180] [main] Total files: 226 [testng] [2024-05-22 03:54:26,180] [main] Scan time: 11.085 s (49 ms/file) [testng] [2024-05-22 03:54:26,180] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 28 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-05-22 03:54:31,771] [pool-1-thread-1] Initializing /data/iplab/Blend_DIC.IPL: [testng] 03:54:31,771 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 03:54:31,771 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:54:31,772 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-05-22_03-54-31.log] [testng] 03:54:31,773 |-INFO in ch.qos.logback.core.sift.SiftProcessor@441fbffd - End of configuration. [testng] [2024-05-22 03:54:31,793] [pool-1-thread-12] Initializing /data/fluoview/Sample_TwoCH.TIF: [testng] 03:54:31,794 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 03:54:31,794 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:54:31,795 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-05-22_03-54-31.log] [testng] 03:54:31,796 |-INFO in ch.qos.logback.core.sift.SiftProcessor@25917a33 - End of configuration. [testng] [2024-05-22 03:54:31,842] [pool-1-thread-11] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-2.lsm: [testng] 03:54:31,842 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 03:54:31,842 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:54:31,843 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-05-22_03-54-31.log] [testng] 03:54:31,844 |-INFO in ch.qos.logback.core.sift.SiftProcessor@544fd711 - End of configuration. [testng] [2024-05-22 03:54:31,933] [pool-1-thread-10] Initializing /data/iplab/3t3 Cell.IPL: [testng] 03:54:31,933 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 03:54:31,933 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:54:31,934 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-05-22_03-54-31.log] [testng] 03:54:31,935 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2fbd4e66 - End of configuration. [testng] [2024-05-22 03:54:31,941] [pool-1-thread-9] Initializing /data/fluoview/sample_labled_XYTCh.tif: [testng] 03:54:31,942 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 03:54:31,942 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:54:31,943 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-05-22_03-54-31.log] [testng] 03:54:31,943 |-INFO in ch.qos.logback.core.sift.SiftProcessor@131149b8 - End of configuration. [testng] [2024-05-22 03:54:31,962] [pool-1-thread-8] Initializing /data/fluoview/SpineAnimation.tif: [testng] 03:54:31,962 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 03:54:31,962 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:54:31,963 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-05-22_03-54-31.log] [testng] 03:54:31,964 |-INFO in ch.qos.logback.core.sift.SiftProcessor@55e7b925 - End of configuration. [testng] [2024-05-22 03:54:32,002] [pool-1-thread-7] Initializing /data/iplab/Chromosomes.IPL: [testng] 03:54:32,002 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 03:54:32,002 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:54:32,003 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-05-22_03-54-32.log] [testng] 03:54:32,003 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2ede508b - End of configuration. [testng] [2024-05-22 03:54:32,009] [pool-1-thread-6] Initializing /data/fluoview/sample_labled_XYZTCh.tif: [testng] 03:54:32,010 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 03:54:32,010 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:54:32,011 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-05-22_03-54-32.log] [testng] 03:54:32,011 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3e76a5eb - End of configuration. [testng] [2024-05-22 03:54:32,039] [pool-1-thread-5] Initializing /data/fluoview/SpineAnimation.avi: [testng] 03:54:32,039 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 03:54:32,039 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:54:32,040 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-05-22_03-54-32.log] [testng] 03:54:32,041 |-INFO in ch.qos.logback.core.sift.SiftProcessor@79a7048d - End of configuration. [testng] [2024-05-22 03:54:32,060] [pool-1-thread-4] Initializing /data/iplab/10x Blood and Bacteria.IPL: [testng] 03:54:32,060 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 03:54:32,060 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:54:32,061 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-05-22_03-54-32.log] [testng] 03:54:32,061 |-INFO in ch.qos.logback.core.sift.SiftProcessor@ee98be0 - End of configuration. [testng] [2024-05-22 03:54:32,084] [pool-1-thread-3] Initializing /data/iplab/Blend_Dapi.IPL: [testng] 03:54:32,084 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 03:54:32,084 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:54:32,085 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-05-22_03-54-32.log] [testng] 03:54:32,086 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4a9e248e - End of configuration. [testng] [2024-05-22 03:54:32,093] [pool-1-thread-2] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile--MultiTrack-1.lsm: [testng] 03:54:32,093 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 03:54:32,093 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:54:32,094 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-05-22_03-54-32.log] [testng] 03:54:32,094 |-INFO in ch.qos.logback.core.sift.SiftProcessor@74e1e9de - End of configuration. [testng] [2024-05-22 03:54:34,091] [pool-1-thread-10] Initializing /data/iplab/Color Histology.IPL: [testng] [2024-05-22 03:54:34,097] [pool-1-thread-7] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/test3.dm3: [testng] [2024-05-22 03:54:34,109] [pool-1-thread-9] Initializing /data/fluoview/Sample_XYT.TIF: [testng] [2024-05-22 03:54:34,144] [pool-1-thread-5] Initializing /data/iplab/16Bit XRay.IPL: [testng] [2024-05-22 03:54:34,149] [pool-1-thread-6] Initializing /data/fluoview/sample_labled_XYZCh.tif: [testng] [2024-05-22 03:54:34,168] [pool-1-thread-8] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-1.lsm: [testng] [2024-05-22 03:54:34,227] [pool-1-thread-3] Initializing /data/iplab/Actin.IPL: [testng] [2024-05-22 03:54:34,235] [pool-1-thread-1] Initializing /data/fluoview/Sample_XT.tif: [testng] [2024-05-22 03:54:34,362] [pool-1-thread-4] Initializing /data/iplab/Color Image.IPL: [testng] [2024-05-22 03:54:34,593] [pool-1-thread-12] Initializing /data/fluoview/Sample_ThreeCH.TIF: [testng] [2024-05-22 03:54:34,629] [pool-1-thread-4] Initializing /data/fluoview/Sample_XYZ.TIF: [testng] [2024-05-22 03:54:34,665] [pool-1-thread-10] Initializing /data/iplab/Blend_Fitc.IPL: [testng] [2024-05-22 03:54:34,712] [pool-1-thread-3] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test.dm3: [testng] [2024-05-22 03:54:34,723] [pool-1-thread-5] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test2.dm3: [testng] [2024-05-22 03:54:34,773] [pool-1-thread-7] Initializing /data/iplab/Blend_Final.IPL: [testng] [2024-05-22 03:54:34,938] [pool-1-thread-6] Initializing /data/iplab/Blend_Tritc.IPL: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1484, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 25 seconds Finished: SUCCESS