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Started by upstream project "BIOFORMATS-test-repo" build number 32 originally caused by: Started by upstream project "Trigger" build number 36 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@5 [BIOFORMATS-test-folder@5] $ /bin/bash -xe /tmp/jenkins12754731131175073282.sh + '[' specs = slidebook ']' ++ date +%u + '[' 6 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_4263_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] WARNING: An illegal reflective access operation has occurred [testng] WARNING: Illegal reflective access by org.kohsuke.file_leak_detector.Listener (file:/home/build/.m2/repository/org/kohsuke/file-leak-detector/1.18/file-leak-detector-1.18-jar-with-dependencies.jar) to field java.net.SocketImpl.socket [testng] WARNING: Please consider reporting this to the maintainers of org.kohsuke.file_leak_detector.Listener [testng] WARNING: Use --illegal-access=warn to enable warnings of further illegal reflective access operations [testng] WARNING: All illegal access operations will be denied in a future release [testng] File leak detector installed [testng] 01:23:46,077 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 01:23:46,079 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - No custom configurators were discovered as a service. [testng] 01:23:46,079 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:23:46,081 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:23:46,081 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:23:46,082 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:23:46,082 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 01:23:46,082 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:23:46,083 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:23:46,084 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:23:46,084 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:23:46,085 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:23:46,327 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:23:46,327 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:23:46,359 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:23:46,360 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:23:46,368 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:23:46,368 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:23:46,368 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:23:46,369 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:23:46,369 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2794eab6 - End of configuration. [testng] 01:23:46,370 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6c1a5b54 - Registering current configuration as safe fallback point [testng] 01:23:46,370 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 287 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-04-13 01:23:46,384] [main] java.version = 11.0.16 [testng] 01:23:46,388 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:23:46,388 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:46,454 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-04-13_01-23-46.log] [testng] 01:23:46,456 |-INFO in ch.qos.logback.core.sift.SiftProcessor@642a7222 - End of configuration. [testng] [2024-04-13 01:23:46,459] [main] testng.directory = /data [testng] [2024-04-13 01:23:46,459] [main] testng.configDirectory = /config [testng] [2024-04-13 01:23:46,479] [main] testng.multiplier = 1.0 [testng] [2024-04-13 01:23:46,482] [main] testng.in-memory = false [testng] [2024-04-13 01:23:46,482] [main] testng.allow-missing = false [testng] [2024-04-13 01:23:46,482] [main] user.language = en [testng] [2024-04-13 01:23:46,483] [main] user.country = ${user.country} [testng] [2024-04-13 01:23:46,483] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-04-13 01:23:59,533] [main] ---------------------------------------- [testng] [2024-04-13 01:23:59,533] [main] Total files: 226 [testng] [2024-04-13 01:23:59,534] [main] Scan time: 13.05 s (57 ms/file) [testng] [2024-04-13 01:23:59,534] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 28 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-04-13 01:24:05,984] [pool-1-thread-1] Initializing /data/fluoview/Sample_XYZ.TIF: [testng] 01:24:05,985 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:24:05,985 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:05,987 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-04-13_01-24-05.log] [testng] 01:24:05,987 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4f217b54 - End of configuration. [testng] [2024-04-13 01:24:06,059] [pool-1-thread-12] Initializing /data/iplab/Color Histology.IPL: [testng] 01:24:06,060 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:24:06,060 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:06,061 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-04-13_01-24-06.log] [testng] 01:24:06,062 |-INFO in ch.qos.logback.core.sift.SiftProcessor@15818a0 - End of configuration. [testng] [2024-04-13 01:24:06,073] [pool-1-thread-11] Initializing /data/fluoview/Sample_TwoCH.TIF: [testng] 01:24:06,073 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:24:06,073 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:06,074 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-04-13_01-24-06.log] [testng] 01:24:06,075 |-INFO in ch.qos.logback.core.sift.SiftProcessor@102ebc8c - End of configuration. [testng] [2024-04-13 01:24:06,132] [pool-1-thread-10] Initializing /data/iplab/Chromosomes.IPL: [testng] 01:24:06,132 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:24:06,132 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:06,133 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-04-13_01-24-06.log] [testng] 01:24:06,133 |-INFO in ch.qos.logback.core.sift.SiftProcessor@35fe2a4b - End of configuration. [testng] [2024-04-13 01:24:06,140] [pool-1-thread-9] Initializing /data/iplab/Blend_Fitc.IPL: [testng] 01:24:06,140 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:24:06,140 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:06,141 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-04-13_01-24-06.log] [testng] 01:24:06,141 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6338a4ea - End of configuration. [testng] [2024-04-13 01:24:06,154] [pool-1-thread-8] Initializing /data/fluoview/sample_labled_XYZCh.tif: [testng] 01:24:06,155 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:24:06,155 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:06,156 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-04-13_01-24-06.log] [testng] 01:24:06,156 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2f9e96a0 - End of configuration. [testng] [2024-04-13 01:24:06,188] [pool-1-thread-7] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile--MultiTrack-1.lsm: [testng] 01:24:06,189 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:24:06,189 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:06,189 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-04-13_01-24-06.log] [testng] 01:24:06,190 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6dd1840 - End of configuration. [testng] [2024-04-13 01:24:06,291] [pool-1-thread-6] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test.dm3: [testng] 01:24:06,291 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:24:06,291 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:06,292 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-04-13_01-24-06.log] [testng] 01:24:06,292 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3f5bfe23 - End of configuration. [testng] [2024-04-13 01:24:06,309] [pool-1-thread-5] Initializing /data/iplab/Blend_DIC.IPL: [testng] 01:24:06,310 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:24:06,310 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:06,311 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-04-13_01-24-06.log] [testng] 01:24:06,311 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4eb25e95 - End of configuration. [testng] [2024-04-13 01:24:06,321] [pool-1-thread-4] Initializing /data/iplab/10x Blood and Bacteria.IPL: [testng] 01:24:06,322 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:24:06,322 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:06,323 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-04-13_01-24-06.log] [testng] 01:24:06,323 |-INFO in ch.qos.logback.core.sift.SiftProcessor@468e4e0e - End of configuration. [testng] [2024-04-13 01:24:06,352] [pool-1-thread-3] Initializing /data/fluoview/sample_labled_XYZTCh.tif: [testng] 01:24:06,352 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:24:06,352 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:06,353 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-04-13_01-24-06.log] [testng] 01:24:06,353 |-INFO in ch.qos.logback.core.sift.SiftProcessor@57b36ea0 - End of configuration. [testng] [2024-04-13 01:24:06,390] [pool-1-thread-2] Initializing /data/fluoview/sample_labled_XYTCh.tif: [testng] 01:24:06,390 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:24:06,390 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:06,391 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-04-13_01-24-06.log] [testng] 01:24:06,391 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1a1377d0 - End of configuration. [testng] [2024-04-13 01:24:08,366] [pool-1-thread-10] Initializing /data/fluoview/SpineAnimation.tif: [testng] [2024-04-13 01:24:08,426] [pool-1-thread-12] Initializing /data/iplab/Actin.IPL: [testng] [2024-04-13 01:24:08,432] [pool-1-thread-6] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test2.dm3: [testng] [2024-04-13 01:24:08,442] [pool-1-thread-5] Initializing /data/fluoview/Sample_XYT.TIF: [testng] [2024-04-13 01:24:08,476] [pool-1-thread-9] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/test3.dm3: [testng] [2024-04-13 01:24:08,484] [pool-1-thread-4] Initializing /data/iplab/3t3 Cell.IPL: [testng] [2024-04-13 01:24:08,489] [pool-1-thread-8] Initializing /data/fluoview/SpineAnimation.avi: [testng] [2024-04-13 01:24:08,501] [pool-1-thread-2] Initializing /data/iplab/Blend_Dapi.IPL: [testng] [2024-04-13 01:24:08,508] [pool-1-thread-3] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-1.lsm: [testng] [2024-04-13 01:24:08,598] [pool-1-thread-1] Initializing /data/iplab/16Bit XRay.IPL: [testng] [2024-04-13 01:24:08,602] [pool-1-thread-11] Initializing /data/fluoview/Sample_XT.tif: [testng] [2024-04-13 01:24:08,896] [pool-1-thread-6] Initializing /data/iplab/Blend_Final.IPL: [testng] [2024-04-13 01:24:08,979] [pool-1-thread-12] Initializing /data/iplab/Blend_Tritc.IPL: [testng] [2024-04-13 01:24:08,989] [pool-1-thread-4] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-2.lsm: [testng] [2024-04-13 01:24:09,090] [pool-1-thread-1] Initializing /data/fluoview/Sample_ThreeCH.TIF: [testng] [2024-04-13 01:24:09,132] [pool-1-thread-9] Initializing /data/iplab/Color Image.IPL: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1484, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 28 seconds Finished: SUCCESS