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Started by upstream project "BIOFORMATS-test-repo" build number 36 originally caused by: Started by upstream project "Trigger" build number 40 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/jenkins12417805452679826932.sh + '[' imaris = slidebook ']' ++ date +%u + '[' 2 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_5009_merge_ci -v /uod/idr/repos/curated/imaris:/data -v /uod/idr-scratch/merge-ci/curated/imaris:/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] 02:13:49,870 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 02:13:49,871 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - No custom configurators were discovered as a service. [testng] 02:13:49,871 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:13:49,872 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:13:49,873 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 02:13:49,873 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 02:13:49,874 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 2 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 02:13:49,874 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:13:49,874 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:13:49,875 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 02:13:49,875 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 02:13:49,875 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 02:13:50,038 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:13:50,038 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:13:50,059 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:13:50,059 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:13:50,064 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:13:50,064 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:13:50,064 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:13:50,065 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:13:50,065 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2794eab6 - End of configuration. [testng] 02:13:50,066 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6c1a5b54 - Registering current configuration as safe fallback point [testng] 02:13:50,066 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 192 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-04-16 02:13:50,074] [main] java.version = 11.0.16 [testng] 02:13:50,077 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:13:50,078 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:13:50,118 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-04-16_02-13-50.log] [testng] 02:13:50,120 |-INFO in ch.qos.logback.core.sift.SiftProcessor@642a7222 - End of configuration. [testng] [2024-04-16 02:13:50,122] [main] testng.directory = /data [testng] [2024-04-16 02:13:50,122] [main] testng.configDirectory = /config [testng] [2024-04-16 02:13:50,131] [main] testng.multiplier = 1.0 [testng] [2024-04-16 02:13:50,133] [main] testng.in-memory = false [testng] [2024-04-16 02:13:50,133] [main] testng.allow-missing = false [testng] [2024-04-16 02:13:50,133] [main] user.language = en [testng] [2024-04-16 02:13:50,133] [main] user.country = ${user.country} [testng] [2024-04-16 02:13:50,133] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-04-16 02:13:57,664] [main] ---------------------------------------- [testng] [2024-04-16 02:13:57,665] [main] Total files: 67 [testng] [2024-04-16 02:13:57,665] [main] Scan time: 7.531 s (112 ms/file) [testng] [2024-04-16 02:13:57,665] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 59 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-04-16 02:14:17,589] [pool-1-thread-1] Initializing /data/public/davemason/Convallaria_3C_3T_35Z_confocal_IMS3.ims: [testng] 02:14:17,590 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:14:17,590 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:14:17,592 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-04-16_02-14-17.log] [testng] 02:14:17,592 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1b3dd5d6 - End of configuration. [testng] [2024-04-16 02:14:17,635] [pool-1-thread-12] Initializing /data/generated/10-31_E_t0001.ims: [testng] 02:14:17,635 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:14:17,635 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:14:17,638 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-04-16_02-14-17.log] [testng] 02:14:17,640 |-INFO in ch.qos.logback.core.sift.SiftProcessor@174efbe9 - End of configuration. [testng] [2024-04-16 02:14:17,670] [pool-1-thread-11] Initializing /data/jake/p75Cherry M2 010-3~B.ims: [testng] 02:14:17,670 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:14:17,670 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:14:17,671 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-04-16_02-14-17.log] [testng] 02:14:17,672 |-INFO in ch.qos.logback.core.sift.SiftProcessor@30e134ee - End of configuration. [testng] [2024-04-16 02:14:17,737] [pool-1-thread-10] Initializing /data/generated/10-31_E_t0013.ims: [testng] 02:14:17,737 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:14:17,737 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:14:17,738 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-04-16_02-14-17.log] [testng] 02:14:17,739 |-INFO in ch.qos.logback.core.sift.SiftProcessor@294ac656 - End of configuration. [testng] [2024-04-16 02:14:17,785] [pool-1-thread-9] Initializing /data/james/apoEcherry_IL10GFP_tfn647_1_R3D_D3D-Display Adjustment-Save-2011-7-5-1.ims: [testng] 02:14:17,785 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:14:17,785 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:14:17,786 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-04-16_02-14-17.log] [testng] 02:14:17,786 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7d78a2a8 - End of configuration. [testng] [2024-04-16 02:14:17,823] [pool-1-thread-8] Initializing /data/generated/10-31_E_t0000.ims: [testng] 02:14:17,823 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:14:17,823 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:14:17,824 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-04-16_02-14-17.log] [testng] 02:14:17,824 |-INFO in ch.qos.logback.core.sift.SiftProcessor@60006ca7 - End of configuration. [testng] [2024-04-16 02:14:17,839] [pool-1-thread-7] Initializing /data/jason/imaris_5_5_demoimages/HeLaCell.ims: [testng] 02:14:17,839 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:14:17,839 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:14:17,840 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-04-16_02-14-17.log] [testng] 02:14:17,840 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5b471354 - End of configuration. [testng] [2024-04-16 02:14:17,893] [pool-1-thread-6] Initializing /data/public/davemason/TransFactors_2C_34Z_SRRF_IMS3.ims: [testng] 02:14:17,894 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:14:17,894 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:14:17,894 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-04-16_02-14-17.log] [testng] 02:14:17,895 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6e845999 - End of configuration. [testng] [2024-04-16 02:14:17,940] [pool-1-thread-5] Initializing /data/jason/imaris_5_5_demoimages/PlantCell.ims: [testng] 02:14:17,941 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:14:17,941 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:14:17,941 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-04-16_02-14-17.log] [testng] 02:14:17,942 |-INFO in ch.qos.logback.core.sift.SiftProcessor@595d55e4 - End of configuration. [testng] [2024-04-16 02:14:18,069] [pool-1-thread-4] Initializing /data/niko/imaris-testfile_5x5x5.ims: [testng] 02:14:18,069 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:14:18,069 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:14:18,070 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-04-16_02-14-18.log] [testng] 02:14:18,071 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6922ebcd - End of configuration. [testng] [2024-04-16 02:14:18,087] [pool-1-thread-3] Initializing /data/qa-17839/Fusion _Stack.ims: [testng] 02:14:18,087 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:14:18,087 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:14:18,088 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-04-16_02-14-18.log] [testng] 02:14:18,088 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3dbf1ca5 - End of configuration. [testng] [2024-04-16 02:14:18,139] [pool-1-thread-2] Initializing /data/public/eliana/retina_large.ims: [testng] 02:14:18,140 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:14:18,140 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:14:18,140 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-04-16_02-14-18.log] [testng] 02:14:18,141 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4b851d2 - End of configuration. [testng] [2024-04-16 02:14:19,414] [pool-1-thread-4] Initializing /data/public/davemason/Convallaria_3C_1T_2x2grid_confocal_IMS3.ims: [testng] [2024-04-16 02:14:19,435] [pool-1-thread-12] Initializing /data/public/davemason/Convallaria_3C_3T_35Z_confocal.ims: [testng] [2024-04-16 02:14:19,459] [pool-1-thread-8] Initializing /data/generated/10-31_E_t0006.ims: [testng] [2024-04-16 02:14:19,469] [pool-1-thread-10] Initializing /data/generated/mri-stack-original.ims: [testng] [2024-04-16 02:14:19,480] [pool-1-thread-7] Initializing /data/qa-8019/wrong_num_dimensions.ims: [testng] [2024-04-16 02:14:19,836] [pool-1-thread-10] Initializing /data/public/davemason/Convallaria_3C_3T_2x2grid_confocal.ims: [testng] [2024-04-16 02:14:19,884] [pool-1-thread-8] Initializing /data/public/davemason/TransFactors_2C_SRRF_IMS3.ims: [testng] [2024-04-16 02:14:19,979] [pool-1-thread-5] Initializing /data/public/davemason/Convallaria_3C_10T_confocal.ims: BUILD SUCCESSFUL Total time: 2 minutes 20 seconds Finished: SUCCESS