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Started by upstream project "BIOFORMATS-test-repo" build number 312 originally caused by: Started by upstream project "Trigger" build number 334 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder [BIOFORMATS-test-folder] $ /bin/bash -xe /tmp/jenkins1433967343730910551.sh + '[' biorad-gel = slidebook ']' ++ date +%u + '[' 3 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_49512_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] 04:02:40,047 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 04:02:40,048 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - No custom configurators were discovered as a service. [testng] 04:02:40,048 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 04:02:40,049 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 04:02:40,050 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 04:02:40,050 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 04:02:40,050 |-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] 04:02:40,050 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 04:02:40,051 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 04:02:40,051 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 04:02:40,052 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 04:02:40,052 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 04:02:40,212 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 04:02:40,212 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 04:02:40,234 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 04:02:40,234 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 04:02:40,239 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 04:02:40,240 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 04:02:40,240 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 04:02:40,240 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 04:02:40,240 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2e3967ea - End of configuration. [testng] 04:02:40,241 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@2e6a8155 - Registering current configuration as safe fallback point [testng] 04:02:40,241 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 190 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-01-08 04:02:40,249] [main] java.version = 17.0.2 [testng] 04:02:40,253 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 04:02:40,253 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:02:40,292 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-01-08_04-02-40.log] [testng] 04:02:40,294 |-INFO in ch.qos.logback.core.sift.SiftProcessor@798162bc - End of configuration. [testng] [2025-01-08 04:02:40,296] [main] testng.directory = /data [testng] [2025-01-08 04:02:40,296] [main] testng.configDirectory = /config [testng] [2025-01-08 04:02:40,305] [main] testng.multiplier = 1.0 [testng] [2025-01-08 04:02:40,306] [main] testng.in-memory = false [testng] [2025-01-08 04:02:40,306] [main] testng.allow-missing = false [testng] [2025-01-08 04:02:40,306] [main] user.language = en [testng] [2025-01-08 04:02:40,306] [main] user.country = ${user.country} [testng] [2025-01-08 04:02:40,306] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2025-01-08 04:02:43,691] [main] ---------------------------------------- [testng] [2025-01-08 04:02:43,691] [main] Total files: 32 [testng] [2025-01-08 04:02:43,691] [main] Scan time: 3.385 s (105 ms/file) [testng] [2025-01-08 04:02:43,691] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 32 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-01-08 04:03:09,089] [pool-1-thread-1] Initializing /data/qa-29459/bad.1sc: [testng] 04:03:09,089 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 04:03:09,089 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:03:09,090 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-01-08_04-03-09.log] [testng] 04:03:09,091 |-INFO in ch.qos.logback.core.sift.SiftProcessor@200b3b7a - End of configuration. [testng] [2025-01-08 04:03:09,505] [pool-1-thread-12] Initializing /data/qa-16880/c-src v7.1sc: [testng] 04:03:09,506 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 04:03:09,506 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:03:09,507 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-01-08_04-03-09.log] [testng] 04:03:09,507 |-INFO in ch.qos.logback.core.sift.SiftProcessor@78011549 - End of configuration. [testng] [2025-01-08 04:03:09,917] [pool-1-thread-11] Initializing /data/sylvain/2009-10-26 14hr 57min.tif: [testng] 04:03:09,917 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 04:03:09,917 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:03:09,918 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-01-08_04-03-09.log] [testng] 04:03:09,919 |-INFO in ch.qos.logback.core.sift.SiftProcessor@170aa4a4 - End of configuration. [testng] [2025-01-08 04:03:11,327] [pool-1-thread-10] Initializing /data/keith/pg020410saur3.1sc: [testng] 04:03:11,328 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 04:03:11,328 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:03:11,329 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-01-08_04-03-11.log] [testng] 04:03:11,329 |-INFO in ch.qos.logback.core.sift.SiftProcessor@374d43a9 - End of configuration. [testng] [2025-01-08 04:03:11,729] [pool-1-thread-9] Initializing /data/sylvain/2009-10-26 14hr 56min.tif: [testng] 04:03:11,729 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 04:03:11,729 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:03:11,730 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-01-08_04-03-11.log] [testng] 04:03:11,730 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4530458e - End of configuration. [testng] [2025-01-08 04:03:13,406] [pool-1-thread-8] Initializing /data/sylvain/2009-10-26 14hr 56min: [testng] 04:03:13,407 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 04:03:13,407 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:03:13,407 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-01-08_04-03-13.log] [testng] 04:03:13,408 |-INFO in ch.qos.logback.core.sift.SiftProcessor@ba62882 - End of configuration. [testng] [2025-01-08 04:03:13,832] [pool-1-thread-7] Initializing /data/sylvain/2009-10-23 12hr 18min: [testng] 04:03:13,832 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 04:03:13,832 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:03:13,833 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-01-08_04-03-13.log] [testng] 04:03:13,833 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4a830a84 - End of configuration. [testng] [2025-01-08 04:03:14,235] [pool-1-thread-6] Initializing /data/qa-29469/good.1sc: [testng] 04:03:14,236 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 04:03:14,236 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:03:14,236 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-01-08_04-03-14.log] [testng] 04:03:14,237 |-INFO in ch.qos.logback.core.sift.SiftProcessor@8d43452 - End of configuration. [testng] [2025-01-08 04:03:14,653] [pool-1-thread-5] Initializing /data/qa-29459/bad.jpg: [testng] 04:03:14,653 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 04:03:14,653 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:03:14,654 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-01-08_04-03-14.log] [testng] 04:03:14,655 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6fc79eec - End of configuration. [testng] [2025-01-08 04:03:14,789] [pool-1-thread-4] Initializing /data/sylvain/2009-10-23 12hr 19min: [testng] 04:03:14,789 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 04:03:14,789 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:03:14,790 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-01-08_04-03-14.log] [testng] 04:03:14,790 |-INFO in ch.qos.logback.core.sift.SiftProcessor@60ad7c8f - End of configuration. [testng] [2025-01-08 04:03:15,197] [pool-1-thread-3] Initializing /data/sylvain/2009-10-26 14hr 59min.tif: [testng] 04:03:15,197 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 04:03:15,197 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:03:15,198 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-01-08_04-03-15.log] [testng] 04:03:15,198 |-INFO in ch.qos.logback.core.sift.SiftProcessor@712bf5d7 - End of configuration. [testng] [2025-01-08 04:03:16,553] [pool-1-thread-2] Initializing /data/geert/good example1.1sc.jpg: [testng] 04:03:16,553 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 04:03:16,553 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:03:16,554 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-01-08_04-03-16.log] [testng] 04:03:16,554 |-INFO in ch.qos.logback.core.sift.SiftProcessor@28e5f74f - End of configuration. [testng] [2025-01-08 04:03:22,241] [pool-1-thread-5] Initializing /data/keith/test2.1sc: [testng] [2025-01-08 04:03:22,640] [pool-1-thread-10] Initializing /data/geert/bad example1.jpg: [testng] [2025-01-08 04:03:22,800] [pool-1-thread-2] Initializing /data/adrian/test_img.1sc: [testng] [2025-01-08 04:03:23,618] [pool-1-thread-12] Initializing /data/sylvain/2009-10-26 14hr 59min: [testng] [2025-01-08 04:03:24,057] [pool-1-thread-1] Initializing /data/sylvain/2009-10-23 12hr 19min.tif: [testng] [2025-01-08 04:03:25,528] [pool-1-thread-6] Initializing /data/keith/PF020426MRSA v2.1sc: [testng] [2025-01-08 04:03:25,939] [pool-1-thread-4] Initializing /data/geert/bad example1.1sc: [testng] [2025-01-08 04:03:26,462] [pool-1-thread-7] Initializing /data/samples/imagesEight.1sc: [testng] [2025-01-08 04:03:26,883] [pool-1-thread-8] Initializing /data/geert/bad example1.1sc.jpg: [testng] [2025-01-08 04:03:32,279] [pool-1-thread-7] Initializing /data/geert/good example1.1sc: [testng] [2025-01-08 04:03:32,823] [pool-1-thread-6] Initializing /data/qa-29469/bad2.1sc: [testng] [2025-01-08 04:03:33,427] [pool-1-thread-5] Initializing /data/sylvain/2009-10-23 12hr 18min.tif: [testng] [2025-01-08 04:03:34,967] [pool-1-thread-12] Initializing /data/keith/PF020328saur v3.1sc: [testng] [2025-01-08 04:03:35,380] [pool-1-thread-4] Initializing /data/sylvain/2009-10-26 14hr 57min: [testng] [2025-01-08 04:03:35,863] [pool-1-thread-2] Initializing /data/david/Original Biorad Gel format file.1sc: [testng] [2025-01-08 04:03:36,605] [pool-1-thread-3] Initializing /data/qa-29469/bad3.1sc: [testng] [2025-01-08 04:03:37,085] [pool-1-thread-8] Initializing /data/samples/Criterion.1sc: [testng] [2025-01-08 04:03:38,067] [pool-1-thread-11] Initializing /data/david/Opened in imageJ.tiff: [testng] [2025-01-08 04:03:39,279] [pool-1-thread-9] Initializing /data/david/Converted in Quantity One (Biorad).tiff: [testng] [2025-01-08 04:03:40,421] [pool-1-thread-10] Initializing /data/keith/test.1sc: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1696, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 1 minute 14 seconds Finished: SUCCESS