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Started by upstream project "BIOFORMATS-test-repo" build number 298 originally caused by: Started by upstream project "Trigger" build number 320 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@6 [BIOFORMATS-test-folder@6] $ /bin/bash -xe /tmp/jenkins14583388419738517667.sh + '[' biorad-gel = slidebook ']' ++ date +%u + '[' 3 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_47202_merge_ci -v /uod/idr/repos/curated/biorad-gel:/data -v /uod/idr-scratch/merge-ci/curated/biorad-gel:/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] 04:53:24,182 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 04:53:24,183 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - No custom configurators were discovered as a service. [testng] 04:53:24,183 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 04:53:24,184 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 04:53:24,185 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 04:53:24,185 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 04:53:24,185 |-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] 04:53:24,185 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 04:53:24,186 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 04:53:24,186 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 04:53:24,187 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 04:53:24,187 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 04:53:24,340 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 04:53:24,341 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 04:53:24,361 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 04:53:24,361 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 04:53:24,366 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 04:53:24,366 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 04:53:24,366 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 04:53:24,367 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 04:53:24,367 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2e3967ea - End of configuration. [testng] 04:53:24,368 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@2e6a8155 - Registering current configuration as safe fallback point [testng] 04:53:24,368 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 182 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-12-25 04:53:24,376] [main] java.version = 17.0.2 [testng] 04:53:24,379 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 04:53:24,379 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:53:24,417 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-25_04-53-24.log] [testng] 04:53:24,419 |-INFO in ch.qos.logback.core.sift.SiftProcessor@798162bc - End of configuration. [testng] [2024-12-25 04:53:24,420] [main] testng.directory = /data [testng] [2024-12-25 04:53:24,421] [main] testng.configDirectory = /config [testng] [2024-12-25 04:53:24,429] [main] testng.multiplier = 1.0 [testng] [2024-12-25 04:53:24,429] [main] testng.in-memory = false [testng] [2024-12-25 04:53:24,429] [main] testng.allow-missing = false [testng] [2024-12-25 04:53:24,430] [main] user.language = en [testng] [2024-12-25 04:53:24,430] [main] user.country = ${user.country} [testng] [2024-12-25 04:53:24,430] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-12-25 04:53:29,563] [main] ---------------------------------------- [testng] [2024-12-25 04:53:29,563] [main] Total files: 32 [testng] [2024-12-25 04:53:29,563] [main] Scan time: 5.133 s (160 ms/file) [testng] [2024-12-25 04:53:29,563] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 32 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-12-25 04:54:10,559] [pool-1-thread-1] Initializing /data/qa-29459/bad.1sc: [testng] 04:54:10,560 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 04:54:10,560 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:54:10,561 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-25_04-54-10.log] [testng] 04:54:10,561 |-INFO in ch.qos.logback.core.sift.SiftProcessor@200b3b7a - End of configuration. [testng] [2024-12-25 04:54:11,347] [pool-1-thread-12] Initializing /data/qa-16880/c-src v7.1sc: [testng] 04:54:11,348 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 04:54:11,348 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:54:11,348 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-25_04-54-11.log] [testng] 04:54:11,349 |-INFO in ch.qos.logback.core.sift.SiftProcessor@78011549 - End of configuration. [testng] [2024-12-25 04:54:12,108] [pool-1-thread-11] Initializing /data/sylvain/2009-10-26 14hr 57min.tif: [testng] 04:54:12,108 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 04:54:12,108 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:54:12,109 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-25_04-54-12.log] [testng] 04:54:12,110 |-INFO in ch.qos.logback.core.sift.SiftProcessor@170aa4a4 - End of configuration. [testng] [2024-12-25 04:54:15,118] [pool-1-thread-10] Initializing /data/keith/pg020410saur3.1sc: [testng] 04:54:15,118 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 04:54:15,118 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:54:15,119 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-25_04-54-15.log] [testng] 04:54:15,119 |-INFO in ch.qos.logback.core.sift.SiftProcessor@164e7515 - End of configuration. [testng] [2024-12-25 04:54:15,866] [pool-1-thread-9] Initializing /data/sylvain/2009-10-26 14hr 56min.tif: [testng] 04:54:15,866 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 04:54:15,866 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:54:15,866 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-25_04-54-15.log] [testng] 04:54:15,867 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4530458e - End of configuration. [testng] [2024-12-25 04:54:18,633] [pool-1-thread-8] Initializing /data/sylvain/2009-10-26 14hr 56min: [testng] 04:54:18,633 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 04:54:18,633 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:54:18,634 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-25_04-54-18.log] [testng] 04:54:18,635 |-INFO in ch.qos.logback.core.sift.SiftProcessor@ba62882 - End of configuration. [testng] [2024-12-25 04:54:19,501] [pool-1-thread-7] Initializing /data/sylvain/2009-10-23 12hr 18min: [testng] 04:54:19,502 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 04:54:19,502 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:54:19,502 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-25_04-54-19.log] [testng] 04:54:19,503 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4a830a84 - End of configuration. [testng] [2024-12-25 04:54:20,400] [pool-1-thread-6] Initializing /data/qa-29469/good.1sc: [testng] 04:54:20,400 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 04:54:20,400 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:54:20,401 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-25_04-54-20.log] [testng] 04:54:20,401 |-INFO in ch.qos.logback.core.sift.SiftProcessor@8d43452 - End of configuration. [testng] [2024-12-25 04:54:21,203] [pool-1-thread-5] Initializing /data/qa-29459/bad.jpg: [testng] 04:54:21,203 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 04:54:21,203 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:54:21,204 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-25_04-54-21.log] [testng] 04:54:21,204 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6fc79eec - End of configuration. [testng] [2024-12-25 04:54:21,555] [pool-1-thread-4] Initializing /data/sylvain/2009-10-23 12hr 19min: [testng] 04:54:21,555 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 04:54:21,556 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:54:21,556 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-25_04-54-21.log] [testng] 04:54:21,557 |-INFO in ch.qos.logback.core.sift.SiftProcessor@60ad7c8f - End of configuration. [testng] [2024-12-25 04:54:22,346] [pool-1-thread-3] Initializing /data/sylvain/2009-10-26 14hr 59min.tif: [testng] 04:54:22,347 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 04:54:22,347 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:54:22,347 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-25_04-54-22.log] [testng] 04:54:22,348 |-INFO in ch.qos.logback.core.sift.SiftProcessor@712bf5d7 - End of configuration. [testng] [2024-12-25 04:54:25,303] [pool-1-thread-2] Initializing /data/geert/good example1.1sc.jpg: [testng] 04:54:25,304 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 04:54:25,304 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:54:25,304 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-25_04-54-25.log] [testng] 04:54:25,305 |-INFO in ch.qos.logback.core.sift.SiftProcessor@28e5f74f - End of configuration. [testng] [2024-12-25 04:54:32,835] [pool-1-thread-10] Initializing /data/keith/test2.1sc: [testng] [2024-12-25 04:54:33,641] [pool-1-thread-1] Initializing /data/sylvain/2009-10-23 12hr 19min.tif: [testng] [2024-12-25 04:54:37,111] [pool-1-thread-5] Initializing /data/keith/PF020426MRSA v2.1sc: [testng] [2024-12-25 04:54:37,873] [pool-1-thread-6] Initializing /data/samples/imagesEight.1sc: [testng] [2024-12-25 04:54:38,849] [pool-1-thread-4] Initializing /data/geert/bad example1.1sc.jpg: [testng] [2024-12-25 04:54:39,089] [pool-1-thread-7] Initializing /data/geert/bad example1.jpg: [testng] [2024-12-25 04:54:39,368] [pool-1-thread-8] Initializing /data/adrian/test_img.1sc: [testng] [2024-12-25 04:54:40,154] [pool-1-thread-2] Initializing /data/sylvain/2009-10-26 14hr 59min: [testng] [2024-12-25 04:54:40,914] [pool-1-thread-12] Initializing /data/geert/bad example1.1sc: [testng] [2024-12-25 04:54:49,052] [pool-1-thread-5] Initializing /data/geert/good example1.1sc: [testng] [2024-12-25 04:54:50,041] [pool-1-thread-6] Initializing /data/qa-29469/bad2.1sc: [testng] [2024-12-25 04:54:51,104] [pool-1-thread-12] Initializing /data/david/Original Biorad Gel format file.1sc: [testng] [2024-12-25 04:54:51,922] [pool-1-thread-8] Initializing /data/sylvain/2009-10-23 12hr 18min.tif: [testng] [2024-12-25 04:54:54,840] [pool-1-thread-10] Initializing /data/david/Converted in Quantity One (Biorad).tiff: [testng] [2024-12-25 04:54:58,389] [pool-1-thread-2] Initializing /data/keith/test.1sc: [testng] [2024-12-25 04:55:00,192] [pool-1-thread-7] Initializing /data/keith/PF020328saur v3.1sc: [testng] [2024-12-25 04:55:00,991] [pool-1-thread-4] Initializing /data/sylvain/2009-10-26 14hr 57min: [testng] [2024-12-25 04:55:01,703] [pool-1-thread-11] Initializing /data/qa-29469/bad3.1sc: [testng] [2024-12-25 04:55:02,533] [pool-1-thread-9] Initializing /data/samples/Criterion.1sc: [testng] [2024-12-25 04:55:03,302] [pool-1-thread-3] Initializing /data/david/Opened in imageJ.tiff: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1696, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 2 minutes 3 seconds Finished: SUCCESS