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Started by upstream project "BIOFORMATS-test-repo" build number 393 originally caused by: Started by upstream project "Trigger" build number 418 originally caused by: Started by user devspace 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/jenkins6577954278857897347.sh + '[' biorad-gel = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_62108_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 test-automated: [testng] File leak detector installed [testng] 14:24:44,697 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15 [testng] 14:24:44,699 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - No custom configurators were discovered as a service. [testng] 14:24:44,699 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 14:24:44,700 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 14:24:44,700 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 14:24:44,700 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 14:24:44,700 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 0 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 14:24:44,700 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 14:24:44,701 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 14:24:44,701 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 14:24:44,701 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 14:24:44,701 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 14:24:44,919 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 14:24:44,919 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 14:24:44,947 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 14:24:44,947 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 14:24:44,954 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 14:24:44,955 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 14:24:44,955 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 14:24:44,955 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 14:24:44,955 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@63355449 - End of configuration. [testng] 14:24:44,956 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@48ae9b55 - Registering current configuration as safe fallback point [testng] 14:24:44,956 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 255 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-03-28 14:24:44,966] [main] java.version = 1.8.0_342 [testng] 14:24:44,969 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 14:24:44,969 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:24:45,013 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-03-28_14-24-44.log] [testng] 14:24:45,014 |-INFO in ch.qos.logback.core.sift.SiftProcessor@765d7657 - End of configuration. [testng] [2025-03-28 14:24:45,016] [main] testng.directory = /data [testng] [2025-03-28 14:24:45,016] [main] testng.configDirectory = /config [testng] [2025-03-28 14:24:45,028] [main] testng.multiplier = 1.0 [testng] [2025-03-28 14:24:45,028] [main] testng.in-memory = false [testng] [2025-03-28 14:24:45,028] [main] testng.allow-missing = false [testng] [2025-03-28 14:24:45,028] [main] user.language = en [testng] [2025-03-28 14:24:45,028] [main] user.country = ${user.country} [testng] [2025-03-28 14:24:45,028] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2025-03-28 14:25:58,281] [main] ---------------------------------------- [testng] [2025-03-28 14:25:58,281] [main] Total files: 32 [testng] [2025-03-28 14:25:58,281] [main] Scan time: 73.253 s (2289 ms/file) [testng] [2025-03-28 14:25:58,281] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 32 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-03-28 14:36:46,677] [pool-1-thread-1] Initializing /data/geert/bad example1.1sc: [testng] 14:36:46,677 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 14:36:46,677 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:36:46,678 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-03-28_14-36-46.log] [testng] 14:36:46,678 |-INFO in ch.qos.logback.core.sift.SiftProcessor@74676358 - End of configuration. [testng] [2025-03-28 14:37:07,310] [pool-1-thread-12] Initializing /data/sylvain/2009-10-26 14hr 56min.tif: [testng] 14:37:07,310 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 14:37:07,310 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:37:07,311 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-03-28_14-37-07.log] [testng] 14:37:07,311 |-INFO in ch.qos.logback.core.sift.SiftProcessor@61632571 - End of configuration. [testng] [2025-03-28 14:38:21,340] [pool-1-thread-11] Initializing /data/keith/pg020410saur3.1sc: [testng] 14:38:21,340 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 14:38:21,340 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:38:21,341 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-03-28_14-38-21.log] [testng] 14:38:21,342 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6ec663f4 - End of configuration. [testng] [2025-03-28 14:38:43,270] [pool-1-thread-10] Initializing /data/geert/good example1.1sc.jpg: [testng] 14:38:43,271 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 14:38:43,271 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:38:43,271 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-03-28_14-38-43.log] [testng] 14:38:43,272 |-INFO in ch.qos.logback.core.sift.SiftProcessor@59d87ec7 - End of configuration. [testng] [2025-03-28 14:38:48,900] [pool-1-thread-9] Initializing /data/david/Opened in imageJ.tiff: [testng] 14:38:48,901 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 14:38:48,901 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:38:48,901 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-03-28_14-38-48.log] [testng] 14:38:48,902 |-INFO in ch.qos.logback.core.sift.SiftProcessor@443f8bab - End of configuration. [testng] [2025-03-28 14:39:44,434] [pool-1-thread-8] Initializing /data/sylvain/2009-10-23 12hr 18min.tif: [testng] 14:39:44,435 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 14:39:44,435 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:39:44,435 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-03-28_14-39-44.log] [testng] 14:39:44,436 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2e7392d8 - End of configuration. [testng] [2025-03-28 14:40:43,843] [pool-1-thread-7] Initializing /data/david/Original Biorad Gel format file.1sc: [testng] 14:40:43,843 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 14:40:43,843 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:40:43,844 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-03-28_14-40-43.log] [testng] 14:40:43,844 |-INFO in ch.qos.logback.core.sift.SiftProcessor@675cac1 - End of configuration. [testng] [2025-03-28 14:40:57,212] [pool-1-thread-6] Initializing /data/sylvain/2009-10-23 12hr 18min: [testng] 14:40:57,213 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 14:40:57,213 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:40:57,213 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-03-28_14-40-57.log] [testng] 14:40:57,213 |-INFO in ch.qos.logback.core.sift.SiftProcessor@20e5cae5 - End of configuration. [testng] [2025-03-28 14:41:23,266] [pool-1-thread-5] Initializing /data/samples/Criterion.1sc: [testng] 14:41:23,266 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 14:41:23,266 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:41:23,266 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-03-28_14-41-23.log] [testng] 14:41:23,267 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3f9edf43 - End of configuration. [testng] [2025-03-28 14:41:53,128] [pool-1-thread-4] Initializing /data/adrian/test_img.1sc: [testng] 14:41:53,129 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 14:41:53,129 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:41:53,129 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-03-28_14-41-53.log] [testng] 14:41:53,129 |-INFO in ch.qos.logback.core.sift.SiftProcessor@422d685d - End of configuration. [testng] [2025-03-28 14:42:30,989] [pool-1-thread-3] Initializing /data/samples/imagesEight.1sc: [testng] 14:42:30,989 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 14:42:30,989 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:42:30,990 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-03-28_14-42-30.log] [testng] 14:42:30,990 |-INFO in ch.qos.logback.core.sift.SiftProcessor@41541439 - End of configuration. [testng] [2025-03-28 14:43:02,484] [pool-1-thread-2] Initializing /data/qa-29469/bad3.1sc: [testng] 14:43:02,484 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 14:43:02,485 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:43:02,485 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-03-28_14-43-02.log] [testng] 14:43:02,485 |-INFO in ch.qos.logback.core.sift.SiftProcessor@23e67eb1 - End of configuration. [testng] [2025-03-28 14:45:04,183] [pool-1-thread-11] Initializing /data/qa-29459/bad.jpg: [testng] [2025-03-28 14:45:08,564] [pool-1-thread-2] Initializing /data/keith/PF020328saur v3.1sc: [testng] [2025-03-28 14:45:15,513] [pool-1-thread-5] Initializing /data/geert/bad example1.1sc.jpg: [testng] [2025-03-28 14:45:17,755] [pool-1-thread-3] Initializing /data/david/Converted in Quantity One (Biorad).tiff: [testng] [2025-03-28 14:46:02,772] [pool-1-thread-7] Initializing /data/qa-29469/bad2.1sc: [testng] [2025-03-28 14:46:14,702] [pool-1-thread-4] Initializing /data/geert/good example1.1sc: [testng] [2025-03-28 14:46:30,732] [pool-1-thread-6] Initializing /data/keith/test2.1sc: [testng] [2025-03-28 14:46:45,643] [pool-1-thread-1] Initializing /data/sylvain/2009-10-23 12hr 19min: [testng] [2025-03-28 14:46:58,037] [pool-1-thread-10] Initializing /data/keith/PF020426MRSA v2.1sc: [testng] [2025-03-28 14:48:27,705] [pool-1-thread-2] Initializing /data/sylvain/2009-10-26 14hr 57min.tif: [testng] [2025-03-28 14:48:58,146] [pool-1-thread-10] Initializing /data/qa-29459/bad.1sc: [testng] [2025-03-28 14:49:07,055] [pool-1-thread-6] Initializing /data/sylvain/2009-10-23 12hr 19min.tif: [testng] [2025-03-28 14:49:43,848] [pool-1-thread-9] Initializing /data/sylvain/2009-10-26 14hr 57min: [testng] [2025-03-28 14:49:52,273] [pool-1-thread-1] Initializing /data/qa-16880/c-src v7.1sc: [testng] [2025-03-28 14:50:11,338] [pool-1-thread-4] Initializing /data/geert/bad example1.jpg: [testng] [2025-03-28 14:50:19,290] [pool-1-thread-12] Initializing /data/sylvain/2009-10-26 14hr 59min.tif: [testng] [2025-03-28 14:51:15,780] [pool-1-thread-8] Initializing /data/sylvain/2009-10-26 14hr 56min: [testng] [2025-03-28 14:51:41,817] [pool-1-thread-7] Initializing /data/sylvain/2009-10-26 14hr 59min: [testng] [2025-03-28 14:52:07,479] [pool-1-thread-5] Initializing /data/qa-29469/good.1sc: [testng] [2025-03-28 14:52:36,401] [pool-1-thread-11] 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: 33 minutes 52 seconds Finished: SUCCESS