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Started by upstream project "BIOFORMATS-test-repo" build number 254 originally caused by: Started by upstream project "Trigger" build number 278 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@8 [BIOFORMATS-test-folder@8] $ /bin/bash -xe /tmp/jenkins7421338877147426431.sh + '[' mias = slidebook ']' ++ date +%u + '[' 3 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_40132_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] 1 warning 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] 04:17:28,452 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 04:17:28,453 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - No custom configurators were discovered as a service. [testng] 04:17:28,453 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 04:17:28,454 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 04:17:28,454 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 04:17:28,454 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 04:17:28,455 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 04:17:28,455 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 04:17:28,455 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 04:17:28,456 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 04:17:28,456 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 04:17:28,456 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 04:17:28,634 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 04:17:28,634 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 04:17:28,661 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 04:17:28,661 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 04:17:28,666 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 04:17:28,666 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 04:17:28,666 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 04:17:28,667 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 04:17:28,667 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2e3967ea - End of configuration. [testng] 04:17:28,668 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@2e6a8155 - Registering current configuration as safe fallback point [testng] 04:17:28,669 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 213 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-11-13 04:17:28,678] [main] java.version = 17.0.2 [testng] 04:17:28,683 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 04:17:28,683 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:17:28,730 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-13_04-17-28.log] [testng] 04:17:28,732 |-INFO in ch.qos.logback.core.sift.SiftProcessor@798162bc - End of configuration. [testng] [2024-11-13 04:17:28,734] [main] testng.directory = /data [testng] [2024-11-13 04:17:28,734] [main] testng.configDirectory = /config [testng] [2024-11-13 04:17:28,744] [main] testng.multiplier = 1.0 [testng] [2024-11-13 04:17:28,745] [main] testng.in-memory = false [testng] [2024-11-13 04:17:28,745] [main] testng.allow-missing = false [testng] [2024-11-13 04:17:28,745] [main] user.language = en [testng] [2024-11-13 04:17:28,745] [main] user.country = ${user.country} [testng] [2024-11-13 04:17:28,745] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-11-13 04:17:48,022] [main] ---------------------------------------- [testng] [2024-11-13 04:17:48,022] [main] Total files: 12 [testng] [2024-11-13 04:17:48,023] [main] Scan time: 19.277 s (1606 ms/file) [testng] [2024-11-13 04:17:48,023] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 7 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-11-13 04:18:59,354] [pool-1-thread-1] Initializing /data/frans/siRNA_PRIM1_03102008/001-365700055641/Well0001/mode1_z000_t000_im1_1.tif: [testng] 04:18:59,354 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 04:18:59,354 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:18:59,355 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-11-13_04-18-59.log] [testng] 04:18:59,356 |-INFO in ch.qos.logback.core.sift.SiftProcessor@730cf8ea - End of configuration. [testng] [2024-11-13 04:19:00,917] [pool-1-thread-7] Initializing /data/frans/NEO-Exp13072008-long-protokol/001-365700055641/Well0001/mode1_z000_t000_im1_1.tif: [testng] 04:19:00,917 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 04:19:00,917 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:19:00,918 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-11-13_04-19-00.log] [testng] 04:19:00,919 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3f8557d3 - End of configuration. [testng] [2024-11-13 04:19:02,402] [pool-1-thread-6] Initializing /data/frans/One MNU Plate/001/Well0014/mode1_z000_t000_im1_1.tif: [testng] 04:19:02,402 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 04:19:02,403 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:19:02,403 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-11-13_04-19-02.log] [testng] 04:19:02,404 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21fd559 - End of configuration. [testng] [2024-11-13 04:19:03,180] [pool-1-thread-5] Initializing /data/frans/MIAS 3 D set 2 july 13 2009/001/0018/1/001_001_000_000.tif: [testng] 04:19:03,180 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 04:19:03,180 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:19:03,181 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-11-13_04-19-03.log] [testng] 04:19:03,182 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7770823d - End of configuration. [testng] [2024-11-13 04:19:03,996] [pool-1-thread-4] Initializing /data/frans/NEO-Exp13072008-long-protokol/005-365700055480/Well0001/mode1_z000_t000_im1_1.tif: [testng] 04:19:03,996 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 04:19:03,996 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:19:03,997 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-11-13_04-19-03.log] [testng] 04:19:03,997 |-INFO in ch.qos.logback.core.sift.SiftProcessor@64160dc9 - End of configuration. [testng] [2024-11-13 04:19:05,632] [pool-1-thread-3] Initializing /data/frans/NEO-Exp13072008-long-protokol/004-365700055549/Well0001/mode1_z000_t000_im1_1.tif: [testng] 04:19:05,632 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 04:19:05,632 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:19:05,633 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-11-13_04-19-05.log] [testng] 04:19:05,633 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6a38c728 - End of configuration. [testng] [2024-11-13 04:19:07,262] [pool-1-thread-2] Initializing /data/frans/MIAS 3D set 3 july 13 2009/001/0074/1/001_001_000_000.tif: [testng] 04:19:07,262 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 04:19:07,262 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:19:07,263 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-11-13_04-19-07.log] [testng] 04:19:07,263 |-INFO in ch.qos.logback.core.sift.SiftProcessor@460a78a0 - 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: 58 minutes 8 seconds Finished: SUCCESS