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Started by upstream project "BIOFORMATS-test-repo" build number 37 originally caused by: Started by upstream project "Trigger" build number 42 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@10 [BIOFORMATS-test-folder@10] $ /bin/bash -xe /tmp/jenkins17218897047514239767.sh + '[' mias = slidebook ']' ++ date +%u + '[' 4 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_5216_merge_ci -v /uod/idr/repos/curated/mias:/data -v /uod/idr-scratch/merge-ci/curated/mias:/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warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] warning: [options] source value 8 is obsolete and will be removed in a future release [javac] warning: [options] target value 8 is obsolete and will be removed in a future release [javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options. [javac] 4 warnings test-automated: [testng] Could not load field socket from SocketImpl: java.lang.NoSuchFieldException: socket [testng] Could not load field serverSocket from SocketImpl: java.lang.NoSuchFieldException: serverSocket [testng] File leak detector installed [testng] 02:36:20,623 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 02:36:20,624 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - No custom configurators were discovered as a service. [testng] 02:36:20,624 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:36:20,625 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:36:20,626 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 02:36:20,626 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 02:36:20,626 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 02:36:20,626 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:36:20,627 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:36:20,628 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 02:36:20,628 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 02:36:20,628 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 02:36:20,801 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:36:20,801 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:36:20,829 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:36:20,830 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:36:20,837 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:36:20,837 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:36:20,838 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:36:20,838 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:36:20,838 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@d9345cd - End of configuration. [testng] 02:36:20,840 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@48aca48b - Registering current configuration as safe fallback point [testng] 02:36:20,840 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 213 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-04-18 02:36:20,858] [main] java.version = 21 [testng] 02:36:20,862 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:36:20,863 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:36:20,913 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-04-18_02-36-20.log] [testng] 02:36:20,915 |-INFO in ch.qos.logback.core.sift.SiftProcessor@71687585 - End of configuration. [testng] [2024-04-18 02:36:20,917] [main] testng.directory = /data [testng] [2024-04-18 02:36:20,917] [main] testng.configDirectory = /config [testng] [2024-04-18 02:36:20,928] [main] testng.multiplier = 1.0 [testng] [2024-04-18 02:36:20,929] [main] testng.in-memory = false [testng] [2024-04-18 02:36:20,929] [main] testng.allow-missing = false [testng] [2024-04-18 02:36:20,929] [main] user.language = en [testng] [2024-04-18 02:36:20,929] [main] user.country = ${user.country} [testng] [2024-04-18 02:36:20,929] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-04-18 02:36:29,419] [main] ---------------------------------------- [testng] [2024-04-18 02:36:29,419] [main] Total files: 12 [testng] [2024-04-18 02:36:29,419] [main] Scan time: 8.49 s (707 ms/file) [testng] [2024-04-18 02:36:29,420] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 7 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-04-18 02:37:04,574] [pool-1-thread-1] Initializing /data/frans/MIAS 3 D set 2 july 13 2009/001/0018/1/001_001_000_000.tif: [testng] 02:37:04,574 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:37:04,574 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:37:04,576 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-04-18_02-37-04.log] [testng] 02:37:04,576 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4da8340f - End of configuration. [testng] [2024-04-18 02:37:04,643] [pool-1-thread-7] Initializing /data/frans/NEO-Exp13072008-long-protokol/001-365700055641/Well0001/mode1_z000_t000_im1_1.tif: [testng] 02:37:04,643 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:37:04,643 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:37:04,651 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-04-18_02-37-04.log] [testng] 02:37:04,651 |-INFO in ch.qos.logback.core.sift.SiftProcessor@202c4530 - End of configuration. [testng] [2024-04-18 02:37:05,277] [pool-1-thread-6] Initializing /data/frans/MIAS 3D set 3 july 13 2009/001/0074/1/001_001_000_000.tif: [testng] 02:37:05,277 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:37:05,277 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:37:05,278 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-04-18_02-37-05.log] [testng] 02:37:05,279 |-INFO in ch.qos.logback.core.sift.SiftProcessor@10e4cddd - End of configuration. [testng] [2024-04-18 02:37:05,322] [pool-1-thread-5] Initializing /data/frans/NEO-Exp13072008-long-protokol/004-365700055549/Well0001/mode1_z000_t000_im1_1.tif: [testng] 02:37:05,323 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:37:05,323 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:37:05,323 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-04-18_02-37-05.log] [testng] 02:37:05,324 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1bd6a203 - End of configuration. [testng] [2024-04-18 02:37:05,887] [pool-1-thread-4] Initializing /data/frans/One MNU Plate/001/Well0014/mode1_z000_t000_im1_1.tif: [testng] 02:37:05,887 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:37:05,887 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:37:05,888 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-04-18_02-37-05.log] [testng] 02:37:05,888 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1f131a36 - End of configuration. [testng] [2024-04-18 02:37:05,965] [pool-1-thread-3] Initializing /data/frans/NEO-Exp13072008-long-protokol/005-365700055480/Well0001/mode1_z000_t000_im1_1.tif: [testng] 02:37:05,966 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:37:05,967 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:37:05,976 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-04-18_02-37-05.log] [testng] 02:37:05,977 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3e6f3fa0 - End of configuration. [testng] [2024-04-18 02:37:06,519] [pool-1-thread-2] Initializing /data/frans/siRNA_PRIM1_03102008/001-365700055641/Well0001/mode1_z000_t000_im1_1.tif: [testng] 02:37:06,519 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:37:06,519 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:37:06,520 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-04-18_02-37-06.log] [testng] 02:37:06,520 |-INFO in ch.qos.logback.core.sift.SiftProcessor@59c940e7 - End of configuration. [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 371, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 13 minutes 27 seconds Finished: SUCCESS