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Started by upstream project "BIOFORMATS-test-repo" build number 391 originally caused by: Started by upstream project "Trigger" build number 415 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@14 [BIOFORMATS-test-folder@14] $ /bin/bash -xe /tmp/jenkins16933742926075316187.sh + '[' metaxpress = slidebook ']' ++ date +%u + '[' 3 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_61830_merge_ci -v /uod/idr/repos/curated/metaxpress:/data -v /uod/idr-scratch/merge-ci/curated/metaxpress:/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] 03:22:22,279 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15 [testng] 03:22:22,280 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - No custom configurators were discovered as a service. [testng] 03:22:22,280 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 03:22:22,281 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 03:22:22,281 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 03:22:22,281 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 03:22:22,282 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 03:22:22,282 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 03:22:22,282 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 03:22:22,283 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 03:22:22,283 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 03:22:22,283 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 03:22:22,435 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 03:22:22,435 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 03:22:22,456 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 03:22:22,456 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 03:22:22,460 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 03:22:22,461 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 03:22:22,461 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 03:22:22,461 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 03:22:22,461 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@3f6f6701 - End of configuration. [testng] 03:22:22,462 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@4f80542f - Registering current configuration as safe fallback point [testng] 03:22:22,462 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 180 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-03-26 03:22:22,470] [main] java.version = 17.0.2 [testng] 03:22:22,473 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 03:22:22,473 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:22:22,512 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-03-26_03-22-22.log] [testng] 03:22:22,513 |-INFO in ch.qos.logback.core.sift.SiftProcessor@14bdbc74 - End of configuration. [testng] [2025-03-26 03:22:22,515] [main] testng.directory = /data [testng] [2025-03-26 03:22:22,515] [main] testng.configDirectory = /config [testng] [2025-03-26 03:22:22,523] [main] testng.multiplier = 1.0 [testng] [2025-03-26 03:22:22,524] [main] testng.in-memory = false [testng] [2025-03-26 03:22:22,524] [main] testng.allow-missing = false [testng] [2025-03-26 03:22:22,524] [main] user.language = en [testng] [2025-03-26 03:22:22,524] [main] user.country = ${user.country} [testng] [2025-03-26 03:22:22,524] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2025-03-26 03:37:41,863] [main] ---------------------------------------- [testng] [2025-03-26 03:37:41,863] [main] Total files: 1231 [testng] [2025-03-26 03:37:41,863] [main] Scan time: 919.339 s (746 ms/file) [testng] [2025-03-26 03:37:41,864] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 10 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-03-26 12:09:06,226] [pool-1-thread-1] Initializing /data/samples/thumb-test/2011-04-19-plate-1.HTD: [testng] 12:09:06,227 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 12:09:06,227 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:09:06,228 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-03-26_12-09-06.log] [testng] 12:09:06,228 |-INFO in ch.qos.logback.core.sift.SiftProcessor@61a0598a - End of configuration. [testng] [2025-03-26 12:20:54,438] [pool-1-thread-10] Initializing /data/samples/multi-channel-missing-corner/multi-channel.HTD: [testng] 12:20:54,439 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 12:20:54,439 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:20:54,440 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-03-26_12-20-54.log] [testng] 12:20:54,440 |-INFO in ch.qos.logback.core.sift.SiftProcessor@61ba9627 - End of configuration. [testng] [2025-03-26 12:21:47,878] [pool-1-thread-9] Initializing /data/samples/single-site-test/single-site.HTD: [testng] 12:21:47,878 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 12:21:47,878 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:21:47,879 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-03-26_12-21-47.log] [testng] 12:21:47,879 |-INFO in ch.qos.logback.core.sift.SiftProcessor@17ba10f - End of configuration. [testng] [2025-03-26 12:24:22,402] [pool-1-thread-8] Initializing /data/samples/multi-z/2011-04-19-plate-1.HTD: [testng] 12:24:22,402 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 12:24:22,402 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:24:22,403 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-03-26_12-24-22.log] [testng] 12:24:22,403 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3a9a11c0 - End of configuration. [testng] [2025-03-26 12:38:50,933] [pool-1-thread-7] Initializing /data/public/idr0006/plate 11001_Plate_136/TimePoint_1/plate 11001.HTD: [testng] 12:38:50,933 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 12:38:50,933 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:38:50,934 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-03-26_12-38-50.log] [testng] 12:38:50,934 |-INFO in ch.qos.logback.core.sift.SiftProcessor@173aa396 - End of configuration. [testng] [2025-03-26 13:52:57,505] [pool-1-thread-6] Initializing /data/public/idr0081/BSF018292-1A/BSF018292-1A.HTD: [testng] 13:52:57,506 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 13:52:57,506 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:52:57,507 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-03-26_13-52-57.log] [testng] 13:52:57,507 |-INFO in ch.qos.logback.core.sift.SiftProcessor@20572afe - End of configuration. [testng] [2025-03-26 14:10:08,711] [pool-1-thread-5] Initializing /data/public/idr0008/Plate10_Actinome1/Act1_Plate10-SP-A8.HTD: [testng] 14:10:08,711 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 14:10:08,711 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:10:08,712 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-03-26_14-10-08.log] [testng] 14:10:08,712 |-INFO in ch.qos.logback.core.sift.SiftProcessor@873f61 - End of configuration. [testng] [2025-03-26 15:03:57,754] [pool-1-thread-4] Initializing /data/public/idr0005/Primary_001/2011-04-19-plate-1.HTD: [testng] 15:03:57,754 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 15:03:57,754 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:03:57,755 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-03-26_15-03-57.log] [testng] 15:03:57,755 |-INFO in ch.qos.logback.core.sift.SiftProcessor@59297601 - End of configuration. [testng] [2025-03-26 15:23:39,449] [pool-1-thread-3] Initializing /data/samples/multi-channel-test/multi-channel.HTD: [testng] 15:23:39,449 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 15:23:39,450 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:23:39,451 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-03-26_15-23-39.log] [testng] 15:23:39,451 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4bdae4b2 - End of configuration. [testng] [2025-03-26 15:24:37,829] [pool-1-thread-2] Initializing /data/qa-4207/NSC.HTD: [testng] 15:24:37,829 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 15:24:37,829 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:24:37,830 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-03-26_15-24-37.log] [testng] 15:24:37,830 |-INFO in ch.qos.logback.core.sift.SiftProcessor@69292759 - End of configuration. [testng] 15:25:37,776 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 15:25:37,776 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:25:37,777 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-03-26_15-25-37.log] [testng] 15:25:37,777 |-INFO in ch.qos.logback.core.sift.SiftProcessor@a59ae - End of configuration. [testng] 15:25:38,864 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 15:25:38,864 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:25:38,865 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-03-26_15-25-38.log] [testng] 15:25:38,865 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3d796dd - End of configuration. [testng] 15:25:38,940 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 15:25:38,941 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:25:38,941 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-03-26_15-25-38.log] [testng] 15:25:38,941 |-INFO in ch.qos.logback.core.sift.SiftProcessor@8d53bba - End of configuration. [testng] 15:25:39,008 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 15:25:39,008 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:25:39,010 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-03-26_15-25-39.log] [testng] 15:25:39,010 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4184fbc4 - End of configuration. Build was aborted Calling Pipeline was cancelled Finished: ABORTED