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Started by upstream project "BIOFORMATS-test-repo" build number 56 originally caused by: Started by upstream project "Trigger" build number 63 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/jenkins3151373634576695303.sh + '[' imaris = slidebook ']' ++ date +%u + '[' 2 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_8290_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] 02:17:48,431 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 02:17:48,433 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - No custom configurators were discovered as a service. [testng] 02:17:48,433 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:17:48,434 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:17:48,434 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 02:17:48,435 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 02:17:48,435 |-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] 02:17:48,435 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:17:48,436 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:17:48,436 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 02:17:48,437 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 02:17:48,437 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 02:17:48,626 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:17:48,626 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:17:48,647 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:17:48,647 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:17:48,653 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:17:48,653 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:17:48,653 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:17:48,654 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:17:48,654 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2794eab6 - End of configuration. [testng] 02:17:48,654 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6c1a5b54 - Registering current configuration as safe fallback point [testng] 02:17:48,655 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 219 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-05-07 02:17:48,664] [main] java.version = 11.0.16 [testng] 02:17:48,667 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:17:48,667 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:17:48,711 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-05-07_02-17-48.log] [testng] 02:17:48,713 |-INFO in ch.qos.logback.core.sift.SiftProcessor@642a7222 - End of configuration. [testng] [2024-05-07 02:17:48,715] [main] testng.directory = /data [testng] [2024-05-07 02:17:48,715] [main] testng.configDirectory = /config [testng] [2024-05-07 02:17:48,725] [main] testng.multiplier = 1.0 [testng] [2024-05-07 02:17:48,726] [main] testng.in-memory = false [testng] [2024-05-07 02:17:48,726] [main] testng.allow-missing = false [testng] [2024-05-07 02:17:48,727] [main] user.language = en [testng] [2024-05-07 02:17:48,727] [main] user.country = ${user.country} [testng] [2024-05-07 02:17:48,727] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-05-07 02:17:59,097] [main] ---------------------------------------- [testng] [2024-05-07 02:17:59,097] [main] Total files: 67 [testng] [2024-05-07 02:17:59,097] [main] Scan time: 10.37 s (154 ms/file) [testng] [2024-05-07 02:17:59,097] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 59 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-05-07 02:18:28,017] [pool-1-thread-1] Initializing /data/public/davemason/Convallaria_3C_1T_2x2grid_confocal_IMS3.ims: [testng] 02:18:28,018 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:18:28,018 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:18:28,020 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-05-07_02-18-28.log] [testng] 02:18:28,021 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7e903ebd - End of configuration. [testng] [2024-05-07 02:18:28,056] [pool-1-thread-12] Initializing /data/qa-4898/o383_1_457_CS_r1.ims: [testng] 02:18:28,057 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:18:28,057 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:18:28,059 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-05-07_02-18-28.log] [testng] 02:18:28,060 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2872462e - End of configuration. [testng] [2024-05-07 02:18:28,112] [pool-1-thread-11] Initializing /data/jcb/fig 6B GFP-AP-2d.ims: [testng] 02:18:28,112 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:18:28,112 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:18:28,113 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-05-07_02-18-28.log] [testng] 02:18:28,114 |-INFO in ch.qos.logback.core.sift.SiftProcessor@26fdab59 - End of configuration. [testng] [2024-05-07 02:18:28,159] [pool-1-thread-10] Initializing /data/generated/10-31_E_t0003.ims: [testng] 02:18:28,159 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:18:28,159 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:18:28,160 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-05-07_02-18-28.log] [testng] 02:18:28,161 |-INFO in ch.qos.logback.core.sift.SiftProcessor@40742e38 - End of configuration. [testng] [2024-05-07 02:18:28,183] [pool-1-thread-9] Initializing /data/generated/10-31_E_t0011.ims: [testng] 02:18:28,183 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:18:28,183 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:18:28,184 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-05-07_02-18-28.log] [testng] 02:18:28,185 |-INFO in ch.qos.logback.core.sift.SiftProcessor@bf95aef - End of configuration. [testng] [2024-05-07 02:18:28,207] [pool-1-thread-8] Initializing /data/generated/MF-2CH-Z-T.ims: [testng] 02:18:28,207 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:18:28,207 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:18:28,208 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-05-07_02-18-28.log] [testng] 02:18:28,209 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2026a053 - End of configuration. [testng] [2024-05-07 02:18:28,225] [pool-1-thread-7] Initializing /data/qa-17522/2016-12-14_08.43.34_Sample Prefix_WAINWRIGHT James_Protocol.ims: [testng] 02:18:28,226 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:18:28,226 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:18:28,226 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-05-07_02-18-28.log] [testng] 02:18:28,227 |-INFO in ch.qos.logback.core.sift.SiftProcessor@a7301e0 - End of configuration. [testng] [2024-05-07 02:18:34,448] [pool-1-thread-6] Initializing /data/jason/imaris_5_5_demoimages/R18Demo.ims: [testng] 02:18:34,448 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:18:34,449 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:18:34,449 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-05-07_02-18-34.log] [testng] 02:18:34,450 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5f88f8e - End of configuration. [testng] [2024-05-07 02:18:34,484] [pool-1-thread-5] Initializing /data/public/davemason/TransFactors_2C_SRRF.ims: [testng] 02:18:34,484 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:18:34,484 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:18:34,485 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-05-07_02-18-34.log] [testng] 02:18:34,486 |-INFO in ch.qos.logback.core.sift.SiftProcessor@155560c3 - End of configuration. [testng] [2024-05-07 02:18:34,525] [pool-1-thread-4] Initializing /data/jason/imaris_5_5_demoimages/PlantCell.ims: [testng] 02:18:34,525 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:18:34,525 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:18:34,526 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-05-07_02-18-34.log] [testng] 02:18:34,526 |-INFO in ch.qos.logback.core.sift.SiftProcessor@9c0eaa3 - End of configuration. [testng] [2024-05-07 02:18:34,560] [pool-1-thread-3] Initializing /data/public/davemason/Convallaria_3C_10T_confocal.ims: [testng] 02:18:34,560 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:18:34,561 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:18:34,561 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-05-07_02-18-34.log] [testng] 02:18:34,561 |-INFO in ch.qos.logback.core.sift.SiftProcessor@738e4b6 - End of configuration. [testng] [2024-05-07 02:18:34,586] [pool-1-thread-2] Initializing /data/generated/10-31_E_t0012.ims: [testng] 02:18:34,586 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:18:34,586 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:18:34,587 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-05-07_02-18-34.log] [testng] 02:18:34,588 |-INFO in ch.qos.logback.core.sift.SiftProcessor@20b2c400 - End of configuration. [testng] [2024-05-07 02:18:37,657] [pool-1-thread-9] Initializing /data/jake/p75Cherry M2 010-3~B.ims: [testng] [2024-05-07 02:18:37,975] [pool-1-thread-4] Initializing /data/jason/imaris_5_5_demoimages/PyramidalCell.ims: [testng] [2024-05-07 02:18:38,214] [pool-1-thread-2] Initializing /data/qa-17515/Organoid=1.ims: [testng] [2024-05-07 02:18:38,575] [pool-1-thread-4] Initializing /data/public/eliana/2016-07-26_17.11.03_Sample Prefix_5P298C2_Protocol.ims: [testng] [2024-05-07 02:18:38,864] [pool-1-thread-10] Initializing /data/generated/10-31_E_t0010.ims: [testng] [2024-05-07 02:18:39,172] [pool-1-thread-10] Initializing /data/qa-17839/Fusion _Stack.ims: [testng] [2024-05-07 02:18:39,419] [pool-1-thread-6] Initializing /data/jason/imaris_5_5_demoimages/SwimmingAlgae.ims: [testng] [2024-05-07 02:18:39,519] [pool-1-thread-8] Initializing /data/public/davemason/Convallaria_3C_3T_2x2grid_confocal.ims: BUILD SUCCESSFUL Total time: 1 minute 49 seconds Finished: SUCCESS