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Started by upstream project "BIOFORMATS-test-repo" build number 297 originally caused by: Started by upstream project "Trigger" build number 319 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@5 [BIOFORMATS-test-folder@5] $ /bin/bash -xe /tmp/jenkins8870339935243478679.sh + '[' biorad-gel = slidebook ']' ++ date +%u + '[' 2 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_47037_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] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-mdbtools/5.3.4-SNAPSHOT/maven-metadata.xml [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/metakit/5.3.8-SNAPSHOT/maven-metadata.xml [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-poi/5.3.10-SNAPSHOT/maven-metadata.xml [resolver:resolve] Resolving artifacts [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-mdbtools/5.3.4-SNAPSHOT/maven-metadata.xml [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/metakit/5.3.8-SNAPSHOT/maven-metadata.xml [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-poi/5.3.10-SNAPSHOT/maven-metadata.xml compile-tests: [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-mdbtools/5.3.4-SNAPSHOT/maven-metadata.xml [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/metakit/5.3.8-SNAPSHOT/maven-metadata.xml [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-poi/5.3.10-SNAPSHOT/maven-metadata.xml [resolver:resolve] Resolving artifacts [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-mdbtools/5.3.4-SNAPSHOT/maven-metadata.xml [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/metakit/5.3.8-SNAPSHOT/maven-metadata.xml [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-poi/5.3.10-SNAPSHOT/maven-metadata.xml [javac] Compiling 1 source file to /bio-formats-build/bioformats/components/test-suite/test test-automated: [testng] File leak detector installed [testng] 04:38:12,466 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 04:38:12,468 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 04:38:12,468 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 04:38:12,469 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 04:38:12,469 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 04:38:12,469 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 04:38:12,469 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 0 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 04:38:12,469 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 04:38:12,470 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 04:38:12,470 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 04:38:12,470 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 04:38:12,470 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 04:38:12,683 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 04:38:12,683 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 04:38:12,709 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 04:38:12,709 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 04:38:12,716 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 04:38:12,716 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 04:38:12,716 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 04:38:12,717 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 04:38:12,717 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 04:38:12,718 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 04:38:12,718 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 248 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-12-24 04:38:12,727] [main] java.version = 1.8.0_342 [testng] 04:38:12,731 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 04:38:12,731 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:38:12,773 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-24_04-38-12.log] [testng] 04:38:12,774 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2024-12-24 04:38:12,776] [main] testng.directory = /data [testng] [2024-12-24 04:38:12,776] [main] testng.configDirectory = /config [testng] [2024-12-24 04:38:12,788] [main] testng.multiplier = 1.0 [testng] [2024-12-24 04:38:12,788] [main] testng.in-memory = false [testng] [2024-12-24 04:38:12,788] [main] testng.allow-missing = false [testng] [2024-12-24 04:38:12,788] [main] user.language = en [testng] [2024-12-24 04:38:12,788] [main] user.country = ${user.country} [testng] [2024-12-24 04:38:12,788] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-12-24 04:38:17,878] [main] ---------------------------------------- [testng] [2024-12-24 04:38:17,878] [main] Total files: 32 [testng] [2024-12-24 04:38:17,878] [main] Scan time: 5.09 s (159 ms/file) [testng] [2024-12-24 04:38:17,878] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 32 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-12-24 04:39:01,805] [pool-1-thread-1] Initializing /data/sylvain/2009-10-26 14hr 56min: [testng] 04:39:01,805 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 04:39:01,805 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:39:01,806 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-24_04-39-01.log] [testng] 04:39:01,807 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6b92f73 - End of configuration. [testng] [2024-12-24 04:39:02,925] [pool-1-thread-12] Initializing /data/samples/Criterion.1sc: [testng] 04:39:02,925 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 04:39:02,925 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:39:02,926 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-24_04-39-02.log] [testng] 04:39:02,926 |-INFO in ch.qos.logback.core.sift.SiftProcessor@747ccc91 - End of configuration. [testng] [2024-12-24 04:39:04,231] [pool-1-thread-11] Initializing /data/qa-29469/bad3.1sc: [testng] 04:39:04,232 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 04:39:04,232 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:39:04,232 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-24_04-39-04.log] [testng] 04:39:04,233 |-INFO in ch.qos.logback.core.sift.SiftProcessor@490f1b40 - End of configuration. [testng] [2024-12-24 04:39:05,582] [pool-1-thread-10] Initializing /data/sylvain/2009-10-26 14hr 59min.tif: [testng] 04:39:05,583 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 04:39:05,583 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:39:05,583 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-24_04-39-05.log] [testng] 04:39:05,584 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2ab7fe9d - End of configuration. [testng] [2024-12-24 04:39:08,783] [pool-1-thread-9] Initializing /data/keith/pg020410saur3.1sc: [testng] 04:39:08,783 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 04:39:08,784 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:39:08,784 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-24_04-39-08.log] [testng] 04:39:08,785 |-INFO in ch.qos.logback.core.sift.SiftProcessor@792f6d67 - End of configuration. [testng] [2024-12-24 04:39:09,699] [pool-1-thread-8] Initializing /data/sylvain/2009-10-26 14hr 56min.tif: [testng] 04:39:09,699 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 04:39:09,699 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:39:09,700 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-24_04-39-09.log] [testng] 04:39:09,700 |-INFO in ch.qos.logback.core.sift.SiftProcessor@64379dc5 - End of configuration. [testng] [2024-12-24 04:39:13,029] [pool-1-thread-7] Initializing /data/geert/bad example1.1sc: [testng] 04:39:13,029 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 04:39:13,029 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:39:13,030 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-24_04-39-13.log] [testng] 04:39:13,030 |-INFO in ch.qos.logback.core.sift.SiftProcessor@122bf1a9 - End of configuration. [testng] [2024-12-24 04:39:14,021] [pool-1-thread-6] Initializing /data/sylvain/2009-10-26 14hr 57min: [testng] 04:39:14,022 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 04:39:14,022 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:39:14,023 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-24_04-39-14.log] [testng] 04:39:14,024 |-INFO in ch.qos.logback.core.sift.SiftProcessor@483c98e5 - End of configuration. [testng] [2024-12-24 04:39:15,019] [pool-1-thread-5] Initializing /data/qa-29459/bad.1sc: [testng] 04:39:15,019 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 04:39:15,019 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:39:15,020 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-24_04-39-15.log] [testng] 04:39:15,020 |-INFO in ch.qos.logback.core.sift.SiftProcessor@ea9eab9 - End of configuration. [testng] [2024-12-24 04:39:15,968] [pool-1-thread-4] Initializing /data/adrian/test_img.1sc: [testng] 04:39:15,968 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 04:39:15,968 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:39:15,969 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-24_04-39-15.log] [testng] 04:39:15,969 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5b2c4fcc - End of configuration. [testng] [2024-12-24 04:39:16,930] [pool-1-thread-3] Initializing /data/keith/test.1sc: [testng] 04:39:16,930 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 04:39:16,930 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:39:16,931 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-24_04-39-16.log] [testng] 04:39:16,931 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3f37ed60 - End of configuration. [testng] [2024-12-24 04:39:17,922] [pool-1-thread-2] Initializing /data/qa-29469/good.1sc: [testng] 04:39:17,922 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 04:39:17,922 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:39:17,923 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-24_04-39-17.log] [testng] 04:39:17,944 |-INFO in ch.qos.logback.core.sift.SiftProcessor@74d2d3ef - End of configuration. [testng] [2024-12-24 04:39:26,827] [pool-1-thread-9] Initializing /data/sylvain/2009-10-23 12hr 19min.tif: [testng] [2024-12-24 04:39:30,294] [pool-1-thread-3] Initializing /data/sylvain/2009-10-23 12hr 19min: [testng] [2024-12-24 04:39:31,294] [pool-1-thread-12] Initializing /data/david/Opened in imageJ.tiff: [testng] [2024-12-24 04:39:34,633] [pool-1-thread-5] Initializing /data/sylvain/2009-10-26 14hr 57min.tif: [testng] [2024-12-24 04:39:37,948] [pool-1-thread-1] Initializing /data/keith/test2.1sc: [testng] [2024-12-24 04:39:38,865] [pool-1-thread-2] Initializing /data/geert/bad example1.jpg: [testng] [2024-12-24 04:39:39,176] [pool-1-thread-4] Initializing /data/qa-29469/bad2.1sc: [testng] [2024-12-24 04:39:40,112] [pool-1-thread-6] Initializing /data/qa-29459/bad.jpg: [testng] [2024-12-24 04:39:40,427] [pool-1-thread-7] Initializing /data/keith/PF020426MRSA v2.1sc: [testng] [2024-12-24 04:39:41,345] [pool-1-thread-11] Initializing /data/david/Converted in Quantity One (Biorad).tiff: [testng] [2024-12-24 04:39:52,806] [pool-1-thread-7] Initializing /data/keith/PF020328saur v3.1sc: [testng] [2024-12-24 04:39:53,926] [pool-1-thread-1] Initializing /data/sylvain/2009-10-23 12hr 18min: [testng] [2024-12-24 04:39:55,067] [pool-1-thread-4] Initializing /data/david/Original Biorad Gel format file.1sc: [testng] [2024-12-24 04:39:56,320] [pool-1-thread-6] Initializing /data/geert/good example1.1sc: [testng] [2024-12-24 04:39:57,675] [pool-1-thread-3] Initializing /data/sylvain/2009-10-23 12hr 18min.tif: [testng] [2024-12-24 04:40:01,709] [pool-1-thread-2] Initializing /data/geert/good example1.1sc.jpg: [testng] [2024-12-24 04:40:02,014] [pool-1-thread-8] Initializing /data/qa-16880/c-src v7.1sc: [testng] [2024-12-24 04:40:03,024] [pool-1-thread-10] Initializing /data/geert/bad example1.1sc.jpg: [testng] [2024-12-24 04:40:11,172] [pool-1-thread-7] Initializing /data/sylvain/2009-10-26 14hr 59min: [testng] [2024-12-24 04:40:12,387] [pool-1-thread-6] Initializing /data/samples/imagesEight.1sc: [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 20 seconds Finished: SUCCESS