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Started by upstream project "BIOFORMATS-test-repo" build number 300 originally caused by: Started by upstream project "Trigger" build number 322 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@7 [BIOFORMATS-test-folder@7] $ /bin/bash -xe /tmp/jenkins2721806057829875553.sh + '[' leica-tcs = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_47541_merge_ci -v /uod/idr/repos/curated/leica-tcs:/data -v /uod/idr-scratch/merge-ci/curated/leica-tcs:/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] 05:09:31,269 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 05:09:31,271 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 05:09:31,271 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 05:09:31,271 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 05:09:31,272 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 05:09:31,272 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 05:09:31,272 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 05:09:31,272 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 05:09:31,273 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 05:09:31,273 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 05:09:31,273 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 05:09:31,273 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 05:09:31,484 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 05:09:31,484 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 05:09:31,510 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 05:09:31,510 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 05:09:31,517 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 05:09:31,517 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 05:09:31,517 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 05:09:31,518 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 05:09:31,518 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 05:09:31,519 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 05:09:31,519 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 246 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-12-27 05:09:31,528] [main] java.version = 1.8.0_342 [testng] 05:09:31,531 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 05:09:31,531 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:09:31,573 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-27_05-09-31.log] [testng] 05:09:31,575 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2024-12-27 05:09:31,576] [main] testng.directory = /data [testng] [2024-12-27 05:09:31,577] [main] testng.configDirectory = /config [testng] [2024-12-27 05:09:31,588] [main] testng.multiplier = 1.0 [testng] [2024-12-27 05:09:31,588] [main] testng.in-memory = false [testng] [2024-12-27 05:09:31,588] [main] testng.allow-missing = false [testng] [2024-12-27 05:09:31,588] [main] user.language = en [testng] [2024-12-27 05:09:31,588] [main] user.country = ${user.country} [testng] [2024-12-27 05:09:31,588] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-12-27 05:09:47,071] [main] ---------------------------------------- [testng] [2024-12-27 05:09:47,071] [main] Total files: 944 [testng] [2024-12-27 05:09:47,071] [main] Scan time: 15.483 s (16 ms/file) [testng] [2024-12-27 05:09:47,071] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 15 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-12-27 05:12:11,772] [pool-1-thread-1] Initializing /data/stjude/Antoday1dblmysglGRP.tif: [testng] 05:12:11,773 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 05:12:11,773 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:12:11,774 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-27_05-12-11.log] [testng] 05:12:11,774 |-INFO in ch.qos.logback.core.sift.SiftProcessor@137bc78b - End of configuration. [testng] [2024-12-27 05:12:13,900] [pool-1-thread-12] Initializing /data/brian/Series002_z01.tif: [testng] 05:12:13,900 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 05:12:13,900 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:12:13,901 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-27_05-12-13.log] [testng] 05:12:13,902 |-INFO in ch.qos.logback.core.sift.SiftProcessor@33c5c1b3 - End of configuration. [testng] [2024-12-27 05:12:16,969] [pool-1-thread-11] Initializing /data/brian/Series002_z00_ch00.tif: [testng] 05:12:16,969 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 05:12:16,969 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:12:16,970 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-27_05-12-16.log] [testng] 05:12:16,970 |-INFO in ch.qos.logback.core.sift.SiftProcessor@424f215f - End of configuration. [testng] [2024-12-27 05:12:19,077] [pool-1-thread-10] Initializing /data/primate/Leica_Image.tif: [testng] 05:12:19,077 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 05:12:19,077 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:12:19,078 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-27_05-12-19.log] [testng] 05:12:19,078 |-INFO in ch.qos.logback.core.sift.SiftProcessor@12f40a43 - End of configuration. [testng] [2024-12-27 05:12:21,002] [pool-1-thread-9] Initializing /data/dave/series 35/042911_Series035_t00_z000_ch00.tif: [testng] 05:12:21,002 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 05:12:21,002 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:12:21,003 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-27_05-12-21.log] [testng] 05:12:21,003 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21a816be - End of configuration. [testng] [2024-12-27 05:13:43,618] [pool-1-thread-8] Initializing /data/stjude/AntoDayzerocy3OVP.tif: [testng] 05:13:43,619 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 05:13:43,619 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:13:43,619 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-27_05-13-43.log] [testng] 05:13:43,620 |-INFO in ch.qos.logback.core.sift.SiftProcessor@30ed9375 - End of configuration. [testng] [2024-12-27 05:13:46,278] [pool-1-thread-7] Initializing /data/stjude/AntoDay4dblmyGRP.tif: [testng] 05:13:46,278 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 05:13:46,278 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:13:46,279 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-27_05-13-46.log] [testng] 05:13:46,279 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2a1bc7c3 - End of configuration. [testng] [2024-12-27 05:13:48,489] [pool-1-thread-6] Initializing /data/stjude/AntoDayzerocy3GRP.tif: [testng] 05:13:48,490 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 05:13:48,490 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:13:48,490 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-27_05-13-48.log] [testng] 05:13:48,491 |-INFO in ch.qos.logback.core.sift.SiftProcessor@465207ce - End of configuration. [testng] [2024-12-27 05:13:51,018] [pool-1-thread-5] Initializing /data/stjude/Antoday1dblcatsglGRP.tif: [testng] 05:13:51,018 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 05:13:51,018 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:13:51,018 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-27_05-13-51.log] [testng] 05:13:51,019 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5ad189d2 - End of configuration. [testng] [2024-12-27 05:13:53,170] [pool-1-thread-4] Initializing /data/stjude/AntoDay1dblGRP.tif: [testng] 05:13:53,170 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 05:13:53,171 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:13:53,171 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-27_05-13-53.log] [testng] 05:13:53,172 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2f885545 - End of configuration. [testng] [2024-12-27 05:13:55,478] [pool-1-thread-3] Initializing /data/stjude/AntoDay4dblcatdataGRP.tif: [testng] 05:13:55,478 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 05:13:55,478 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:13:55,478 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-27_05-13-55.log] [testng] 05:13:55,479 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2128ed53 - End of configuration. [testng] [2024-12-27 05:13:57,950] [pool-1-thread-2] Initializing /data/martin/Series028_z00_ch00.tif: [testng] 05:13:57,950 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 05:13:57,950 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:13:57,951 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-27_05-13-57.log] [testng] 05:13:57,951 |-INFO in ch.qos.logback.core.sift.SiftProcessor@19797df9 - End of configuration. [testng] [2024-12-27 05:14:15,736] [pool-1-thread-10] Initializing /data/stjude/Antoday1dblcat2dataGRP.tif: [testng] [2024-12-27 05:14:22,595] [pool-1-thread-12] Initializing /data/stjude/AntoDay4dblmy2GRP.tif: [testng] [2024-12-27 05:14:25,406] [pool-1-thread-7] Initializing /data/stjude/AntoDay1cy3/c01f0001.TIF: [testng] 07:11:01,043 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 07:11:01,043 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:11:01,044 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-27_07-11-01.log] [testng] 07:11:01,045 |-INFO in ch.qos.logback.core.sift.SiftProcessor@26586b74 - End of configuration. [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 795, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 121 minutes 32 seconds Finished: SUCCESS