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Started by upstream project "BIOFORMATS-test-repo" build number 293 originally caused by: Started by upstream project "Trigger" build number 312 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/jenkins1806075019842278099.sh + '[' mias = slidebook ']' ++ date +%u + '[' 2 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_46402_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] 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] 11:24:20,766 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 11:24:20,767 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - No custom configurators were discovered as a service. [testng] 11:24:20,767 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 11:24:20,768 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 11:24:20,769 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 11:24:20,769 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 11:24:20,770 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 2 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 11:24:20,770 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 11:24:20,770 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 11:24:20,771 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 11:24:20,771 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 11:24:20,771 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 11:24:20,937 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 11:24:20,938 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 11:24:20,960 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 11:24:20,960 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 11:24:20,966 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 11:24:20,966 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 11:24:20,966 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 11:24:20,966 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 11:24:20,966 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@45099dd3 - End of configuration. [testng] 11:24:20,967 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@60099951 - Registering current configuration as safe fallback point [testng] 11:24:20,967 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 197 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-12-17 11:24:20,976] [main] java.version = 11.0.16 [testng] 11:24:20,979 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 11:24:20,980 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:24:21,022 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-17_11-24-20.log] [testng] 11:24:21,024 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21be3395 - End of configuration. [testng] [2024-12-17 11:24:21,025] [main] testng.directory = /data [testng] [2024-12-17 11:24:21,026] [main] testng.configDirectory = /config [testng] [2024-12-17 11:24:21,035] [main] testng.multiplier = 1.0 [testng] [2024-12-17 11:24:21,036] [main] testng.in-memory = false [testng] [2024-12-17 11:24:21,037] [main] testng.allow-missing = false [testng] [2024-12-17 11:24:21,037] [main] user.language = en [testng] [2024-12-17 11:24:21,037] [main] user.country = ${user.country} [testng] [2024-12-17 11:24:21,037] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-12-17 11:24:44,676] [main] ---------------------------------------- [testng] [2024-12-17 11:24:44,677] [main] Total files: 12 [testng] [2024-12-17 11:24:44,677] [main] Scan time: 23.639 s (1969 ms/file) [testng] [2024-12-17 11:24:44,677] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 7 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-12-17 11:26:42,185] [pool-1-thread-1] Initializing /data/frans/NEO-Exp13072008-long-protokol/001-365700055641/Well0001/mode1_z000_t000_im1_1.tif: [testng] 11:26:42,186 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 11:26:42,186 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:26:42,187 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-17_11-26-42.log] [testng] 11:26:42,188 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4c8802d3 - End of configuration. [testng] [2024-12-17 11:26:44,769] [pool-1-thread-7] Initializing /data/frans/NEO-Exp13072008-long-protokol/005-365700055480/Well0001/mode1_z000_t000_im1_1.tif: [testng] 11:26:44,769 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 11:26:44,769 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:26:44,771 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-17_11-26-44.log] [testng] 11:26:44,771 |-INFO in ch.qos.logback.core.sift.SiftProcessor@19132e51 - End of configuration. [testng] [2024-12-17 11:26:47,383] [pool-1-thread-6] Initializing /data/frans/One MNU Plate/001/Well0014/mode1_z000_t000_im1_1.tif: [testng] 11:26:47,383 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 11:26:47,383 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:26:47,384 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-17_11-26-47.log] [testng] 11:26:47,384 |-INFO in ch.qos.logback.core.sift.SiftProcessor@292e2fe9 - End of configuration. [testng] [2024-12-17 11:26:49,063] [pool-1-thread-5] Initializing /data/frans/siRNA_PRIM1_03102008/001-365700055641/Well0001/mode1_z000_t000_im1_1.tif: [testng] 11:26:49,063 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 11:26:49,063 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:26:49,064 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-17_11-26-49.log] [testng] 11:26:49,064 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5dd2cffe - End of configuration. [testng] [2024-12-17 11:26:50,956] [pool-1-thread-4] Initializing /data/frans/NEO-Exp13072008-long-protokol/004-365700055549/Well0001/mode1_z000_t000_im1_1.tif: [testng] 11:26:50,957 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 11:26:50,957 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:26:50,957 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-17_11-26-50.log] [testng] 11:26:50,957 |-INFO in ch.qos.logback.core.sift.SiftProcessor@373b5721 - End of configuration. [testng] [2024-12-17 11:26:53,784] [pool-1-thread-3] Initializing /data/frans/MIAS 3 D set 2 july 13 2009/001/0018/1/001_001_000_000.tif: [testng] 11:26:53,784 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 11:26:53,784 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:26:53,785 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-17_11-26-53.log] [testng] 11:26:53,785 |-INFO in ch.qos.logback.core.sift.SiftProcessor@47439c0 - End of configuration. [testng] [2024-12-17 11:26:55,634] [pool-1-thread-2] Initializing /data/frans/MIAS 3D set 3 july 13 2009/001/0074/1/001_001_000_000.tif: [testng] 11:26:55,634 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 11:26:55,634 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:26:55,635 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-17_11-26-55.log] [testng] 11:26:55,635 |-INFO in ch.qos.logback.core.sift.SiftProcessor@38404d94 - End of configuration. [testng] 13:24:32,438 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 13:24:32,438 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:24:32,439 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-17_13-24-32.log] [testng] 13:24:32,439 |-INFO in ch.qos.logback.core.sift.SiftProcessor@535b1ae6 - 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: 120 minutes 16 seconds Finished: SUCCESS