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Started by upstream project "BIOFORMATS-test-repo" build number 238 originally caused by: Started by upstream project "Trigger" build number 263 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/jenkins6331101859225663633.sh + '[' specs = slidebook ']' ++ date +%u + '[' 2 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_37375_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] 00:26:38,430 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 00:26:38,432 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - No custom configurators were discovered as a service. [testng] 00:26:38,432 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:26:38,433 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:26:38,433 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 00:26:38,434 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 00:26:38,434 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 00:26:38,434 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:26:38,435 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:26:38,435 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 00:26:38,436 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 00:26:38,436 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 00:26:38,626 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 00:26:38,626 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 00:26:38,651 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 00:26:38,651 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 00:26:38,657 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 00:26:38,657 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 00:26:38,657 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 00:26:38,658 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 00:26:38,658 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@45099dd3 - End of configuration. [testng] 00:26:38,659 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@60099951 - Registering current configuration as safe fallback point [testng] 00:26:38,659 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 224 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-10-29 00:26:38,669] [main] java.version = 11.0.16 [testng] 00:26:38,673 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 00:26:38,673 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:26:38,720 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-29_00-26-38.log] [testng] 00:26:38,721 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21be3395 - End of configuration. [testng] [2024-10-29 00:26:38,723] [main] testng.directory = /data [testng] [2024-10-29 00:26:38,724] [main] testng.configDirectory = /config [testng] [2024-10-29 00:26:38,734] [main] testng.multiplier = 1.0 [testng] [2024-10-29 00:26:38,736] [main] testng.in-memory = false [testng] [2024-10-29 00:26:38,736] [main] testng.allow-missing = false [testng] [2024-10-29 00:26:38,736] [main] user.language = en [testng] [2024-10-29 00:26:38,736] [main] user.country = ${user.country} [testng] [2024-10-29 00:26:38,736] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-10-29 00:29:28,056] [main] ---------------------------------------- [testng] [2024-10-29 00:29:28,056] [main] Total files: 226 [testng] [2024-10-29 00:29:28,056] [main] Scan time: 169.32 s (749 ms/file) [testng] [2024-10-29 00:29:28,056] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 28 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-10-29 00:31:13,929] [pool-1-thread-1] Initializing /data/fluoview/Sample_XT.tif: [testng] 00:31:13,930 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 00:31:13,930 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:31:13,932 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-29_00-31-13.log] [testng] 00:31:13,932 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3fff940c - End of configuration. [testng] [2024-10-29 00:31:14,106] [pool-1-thread-12] Initializing /data/iplab/Blend_DIC.IPL: [testng] 00:31:14,106 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 00:31:14,106 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:31:14,108 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-10-29_00-31-14.log] [testng] 00:31:14,109 |-INFO in ch.qos.logback.core.sift.SiftProcessor@443e61b1 - End of configuration. [testng] [2024-10-29 00:31:14,139] [pool-1-thread-11] Initializing /data/iplab/Color Histology.IPL: [testng] 00:31:14,140 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 00:31:14,140 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:31:14,140 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-10-29_00-31-14.log] [testng] 00:31:14,141 |-INFO in ch.qos.logback.core.sift.SiftProcessor@93d1b98 - End of configuration. [testng] [2024-10-29 00:31:14,167] [pool-1-thread-10] Initializing /data/iplab/Color Image.IPL: [testng] 00:31:14,167 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 00:31:14,168 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:31:14,169 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-29_00-31-14.log] [testng] 00:31:14,169 |-INFO in ch.qos.logback.core.sift.SiftProcessor@47e3378c - End of configuration. [testng] [2024-10-29 00:31:14,201] [pool-1-thread-9] Initializing /data/iplab/Chromosomes.IPL: [testng] 00:31:14,201 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 00:31:14,201 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:31:14,202 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-29_00-31-14.log] [testng] 00:31:14,202 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2cd1cbcc - End of configuration. [testng] [2024-10-29 00:31:14,224] [pool-1-thread-8] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test2.dm3: [testng] 00:31:14,224 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 00:31:14,224 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:31:14,225 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-29_00-31-14.log] [testng] 00:31:14,225 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5da983cb - End of configuration. [testng] [2024-10-29 00:31:14,262] [pool-1-thread-7] Initializing /data/fluoview/sample_labled_XYZTCh.tif: [testng] 00:31:14,262 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 00:31:14,262 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:31:14,263 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-29_00-31-14.log] [testng] 00:31:14,263 |-INFO in ch.qos.logback.core.sift.SiftProcessor@553f1812 - End of configuration. [testng] [2024-10-29 00:31:14,394] [pool-1-thread-6] Initializing /data/iplab/16Bit XRay.IPL: [testng] 00:31:14,394 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 00:31:14,394 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:31:14,395 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-29_00-31-14.log] [testng] 00:31:14,395 |-INFO in ch.qos.logback.core.sift.SiftProcessor@481ffd45 - End of configuration. [testng] [2024-10-29 00:31:14,428] [pool-1-thread-5] Initializing /data/iplab/Blend_Fitc.IPL: [testng] 00:31:14,428 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 00:31:14,428 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:31:14,429 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-29_00-31-14.log] [testng] 00:31:14,429 |-INFO in ch.qos.logback.core.sift.SiftProcessor@771d1763 - End of configuration. [testng] [2024-10-29 00:31:14,484] [pool-1-thread-4] Initializing /data/fluoview/SpineAnimation.tif: [testng] 00:31:14,484 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 00:31:14,484 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:31:14,485 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-29_00-31-14.log] [testng] 00:31:14,486 |-INFO in ch.qos.logback.core.sift.SiftProcessor@61c43608 - End of configuration. [testng] [2024-10-29 00:31:14,736] [pool-1-thread-3] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile--MultiTrack-1.lsm: [testng] 00:31:14,736 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 00:31:14,736 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:31:14,737 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-29_00-31-14.log] [testng] 00:31:14,737 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4ddb6886 - End of configuration. [testng] [2024-10-29 00:31:14,919] [pool-1-thread-2] Initializing /data/iplab/Blend_Tritc.IPL: [testng] 00:31:14,919 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 00:31:14,919 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:31:14,920 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-29_00-31-14.log] [testng] 00:31:14,920 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7f374ea1 - End of configuration. [testng] [2024-10-29 00:31:17,111] [pool-1-thread-10] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/test3.dm3: [testng] [2024-10-29 00:31:17,155] [pool-1-thread-2] Initializing /data/iplab/Blend_Final.IPL: [testng] [2024-10-29 00:31:17,195] [pool-1-thread-11] Initializing /data/fluoview/sample_labled_XYTCh.tif: [testng] [2024-10-29 00:31:17,386] [pool-1-thread-9] Initializing /data/iplab/3t3 Cell.IPL: [testng] [2024-10-29 00:31:17,414] [pool-1-thread-6] Initializing /data/fluoview/Sample_XYT.TIF: [testng] [2024-10-29 00:31:17,657] [pool-1-thread-8] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-1.lsm: [testng] [2024-10-29 00:31:17,995] [pool-1-thread-12] Initializing /data/fluoview/Sample_XYZ.TIF: [testng] [2024-10-29 00:31:18,325] [pool-1-thread-5] Initializing /data/fluoview/Sample_ThreeCH.TIF: [testng] [2024-10-29 00:31:18,515] [pool-1-thread-7] Initializing /data/fluoview/Sample_TwoCH.TIF: [testng] [2024-10-29 00:31:18,692] [pool-1-thread-4] Initializing /data/fluoview/sample_labled_XYZCh.tif: [testng] [2024-10-29 00:31:18,859] [pool-1-thread-1] Initializing /data/fluoview/SpineAnimation.avi: [testng] [2024-10-29 00:31:19,282] [pool-1-thread-9] Initializing /data/iplab/Blend_Dapi.IPL: [testng] [2024-10-29 00:31:19,439] [pool-1-thread-2] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-2.lsm: [testng] [2024-10-29 00:31:19,705] [pool-1-thread-10] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test.dm3: [testng] [2024-10-29 00:31:20,214] [pool-1-thread-9] Initializing /data/iplab/Actin.IPL: [testng] [2024-10-29 00:31:20,609] [pool-1-thread-10] Initializing /data/iplab/10x Blood and Bacteria.IPL: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1484, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 4 minutes 49 seconds Finished: SUCCESS