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Started by upstream project "BIOFORMATS-test-repo" build number 221 originally caused by: Started by upstream project "Trigger" build number 248 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/jenkins6324990894790047404.sh + '[' specs = slidebook ']' ++ date +%u + '[' 2 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_35051_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] 01:48:00,839 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 01:48:00,840 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - No custom configurators were discovered as a service. [testng] 01:48:00,840 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:48:00,841 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:48:00,842 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:48:00,842 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:48:00,842 |-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] 01:48:00,842 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:48:00,843 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:48:00,843 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:48:00,844 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:48:00,844 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:48:01,004 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:48:01,004 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:48:01,026 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:48:01,026 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:48:01,031 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:48:01,031 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:48:01,031 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:48:01,032 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:48:01,032 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@45099dd3 - End of configuration. [testng] 01:48:01,033 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@60099951 - Registering current configuration as safe fallback point [testng] 01:48:01,033 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 190 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-10-15 01:48:01,041] [main] java.version = 11.0.16 [testng] 01:48:01,044 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:48:01,044 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:48:01,085 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-15_01-48-01.log] [testng] 01:48:01,086 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21be3395 - End of configuration. [testng] [2024-10-15 01:48:01,088] [main] testng.directory = /data [testng] [2024-10-15 01:48:01,088] [main] testng.configDirectory = /config [testng] [2024-10-15 01:48:01,097] [main] testng.multiplier = 1.0 [testng] [2024-10-15 01:48:01,099] [main] testng.in-memory = false [testng] [2024-10-15 01:48:01,099] [main] testng.allow-missing = false [testng] [2024-10-15 01:48:01,099] [main] user.language = en [testng] [2024-10-15 01:48:01,099] [main] user.country = ${user.country} [testng] [2024-10-15 01:48:01,099] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-10-15 02:02:52,307] [main] ---------------------------------------- [testng] [2024-10-15 02:02:52,307] [main] Total files: 226 [testng] [2024-10-15 02:02:52,307] [main] Scan time: 891.208 s (3943 ms/file) [testng] [2024-10-15 02:02:52,308] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 28 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-10-15 02:17:53,432] [pool-1-thread-1] Initializing /data/fluoview/Sample_XT.tif: [testng] 02:17:53,433 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:17:53,433 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:17:53,435 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-15_02-17-53.log] [testng] 02:17:53,436 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36d29b7a - End of configuration. [testng] [2024-10-15 02:17:55,251] [pool-1-thread-12] Initializing /data/iplab/Blend_DIC.IPL: [testng] 02:17:55,251 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:17:55,251 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:17:55,252 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-10-15_02-17-55.log] [testng] 02:17:55,253 |-INFO in ch.qos.logback.core.sift.SiftProcessor@168b0460 - End of configuration. [testng] [2024-10-15 02:17:55,459] [pool-1-thread-11] Initializing /data/iplab/Color Histology.IPL: [testng] 02:17:55,459 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:17:55,459 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:17:55,460 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-10-15_02-17-55.log] [testng] 02:17:55,460 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4fa3eb9b - End of configuration. [testng] [2024-10-15 02:17:55,661] [pool-1-thread-10] Initializing /data/iplab/Color Image.IPL: [testng] 02:17:55,661 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:17:55,661 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:17:55,662 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-15_02-17-55.log] [testng] 02:17:55,662 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21c88b86 - End of configuration. [testng] [2024-10-15 02:17:55,985] [pool-1-thread-9] Initializing /data/iplab/Chromosomes.IPL: [testng] 02:17:55,985 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:17:55,985 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:17:55,986 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-15_02-17-55.log] [testng] 02:17:55,986 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3b40e4ec - End of configuration. [testng] [2024-10-15 02:17:56,290] [pool-1-thread-8] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test2.dm3: [testng] 02:17:56,290 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:17:56,290 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:17:56,291 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-15_02-17-56.log] [testng] 02:17:56,291 |-INFO in ch.qos.logback.core.sift.SiftProcessor@275be4c1 - End of configuration. [testng] [2024-10-15 02:17:56,906] [pool-1-thread-7] Initializing /data/fluoview/sample_labled_XYZTCh.tif: [testng] 02:17:56,906 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:17:56,906 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:17:56,907 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-15_02-17-56.log] [testng] 02:17:56,907 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6ddc5575 - End of configuration. [testng] [2024-10-15 02:17:58,404] [pool-1-thread-6] Initializing /data/iplab/16Bit XRay.IPL: [testng] 02:17:58,404 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:17:58,404 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:17:58,405 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-15_02-17-58.log] [testng] 02:17:58,405 |-INFO in ch.qos.logback.core.sift.SiftProcessor@139e39f9 - End of configuration. [testng] [2024-10-15 02:17:58,601] [pool-1-thread-5] Initializing /data/iplab/Blend_Fitc.IPL: [testng] 02:17:58,601 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:17:58,601 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:17:58,602 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-15_02-17-58.log] [testng] 02:17:58,602 |-INFO in ch.qos.logback.core.sift.SiftProcessor@39d07b87 - End of configuration. [testng] [2024-10-15 02:17:58,770] [pool-1-thread-4] Initializing /data/fluoview/SpineAnimation.tif: [testng] 02:17:58,770 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:17:58,770 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:17:58,771 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-15_02-17-58.log] [testng] 02:17:58,771 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4917ba06 - End of configuration. [testng] [2024-10-15 02:18:00,516] [pool-1-thread-3] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile--MultiTrack-1.lsm: [testng] 02:18:00,516 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:18:00,516 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:18:00,516 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-15_02-18-00.log] [testng] 02:18:00,517 |-INFO in ch.qos.logback.core.sift.SiftProcessor@44859c38 - End of configuration. [testng] [2024-10-15 02:18:02,328] [pool-1-thread-2] Initializing /data/iplab/Blend_Tritc.IPL: [testng] 02:18:02,329 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:18:02,329 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:18:02,330 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-15_02-18-02.log] [testng] 02:18:02,330 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6899e5dd - End of configuration. [testng] [2024-10-15 02:18:08,038] [pool-1-thread-10] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/test3.dm3: [testng] [2024-10-15 02:18:08,383] [pool-1-thread-9] Initializing /data/fluoview/Sample_XYZ.TIF: [testng] [2024-10-15 02:18:10,214] [pool-1-thread-11] Initializing /data/iplab/Blend_Final.IPL: [testng] [2024-10-15 02:18:10,390] [pool-1-thread-6] Initializing /data/fluoview/sample_labled_XYTCh.tif: [testng] [2024-10-15 02:18:12,009] [pool-1-thread-12] Initializing /data/iplab/3t3 Cell.IPL: [testng] [2024-10-15 02:18:12,148] [pool-1-thread-2] Initializing /data/fluoview/Sample_XYT.TIF: [testng] [2024-10-15 02:18:13,733] [pool-1-thread-5] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-1.lsm: [testng] [2024-10-15 02:18:15,825] [pool-1-thread-8] Initializing /data/fluoview/Sample_TwoCH.TIF: [testng] [2024-10-15 02:18:19,677] [pool-1-thread-12] Initializing /data/fluoview/Sample_ThreeCH.TIF: [testng] [2024-10-15 02:18:21,826] [pool-1-thread-11] Initializing /data/fluoview/SpineAnimation.avi: [testng] [2024-10-15 02:18:22,639] [pool-1-thread-10] Initializing /data/fluoview/sample_labled_XYZCh.tif: [testng] [2024-10-15 02:18:26,336] [pool-1-thread-7] Initializing /data/iplab/Blend_Dapi.IPL: [testng] [2024-10-15 02:18:26,764] [pool-1-thread-1] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test.dm3: [testng] [2024-10-15 02:18:27,167] [pool-1-thread-4] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-2.lsm: [testng] [2024-10-15 02:18:30,968] [pool-1-thread-11] Initializing /data/iplab/Actin.IPL: [testng] [2024-10-15 02:18:31,404] [pool-1-thread-6] 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: 30 minutes 54 seconds Finished: SUCCESS