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Started by upstream project "BIOFORMATS-test-repo" build number 227 originally caused by: Started by upstream project "Trigger" build number 252 originally caused by: Started by user devspace Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@4 [BIOFORMATS-test-folder@4] $ /bin/bash -xe /tmp/jenkins5622790710862417460.sh + '[' nikon-jp2 = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_35689_merge_ci -v /uod/idr/repos/curated/nikon-jp2:/data -v /uod/idr-scratch/merge-ci/curated/nikon-jp2:/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] 12:49:44,836 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 12:49:44,838 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 12:49:44,838 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 12:49:44,839 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 12:49:44,839 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 12:49:44,839 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 12:49:44,840 |-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] 12:49:44,840 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 12:49:44,840 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 12:49:44,840 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 12:49:44,840 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 12:49:44,840 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 12:49:45,077 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 12:49:45,077 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 12:49:45,104 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 12:49:45,104 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 12:49:45,112 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 12:49:45,112 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 12:49:45,112 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 12:49:45,113 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 12:49:45,113 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 12:49:45,114 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 12:49:45,114 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 274 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-10-18 12:49:45,123] [main] java.version = 1.8.0_342 [testng] 12:49:45,127 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 12:49:45,127 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:49:45,171 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-18_12-49-45.log] [testng] 12:49:45,172 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2024-10-18 12:49:45,174] [main] testng.directory = /data [testng] [2024-10-18 12:49:45,174] [main] testng.configDirectory = /config [testng] [2024-10-18 12:49:45,186] [main] testng.multiplier = 1.0 [testng] [2024-10-18 12:49:45,186] [main] testng.in-memory = false [testng] [2024-10-18 12:49:45,186] [main] testng.allow-missing = false [testng] [2024-10-18 12:49:45,186] [main] user.language = en [testng] [2024-10-18 12:49:45,187] [main] user.country = ${user.country} [testng] [2024-10-18 12:49:45,187] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-10-18 12:49:47,079] [main] ---------------------------------------- [testng] [2024-10-18 12:49:47,079] [main] Total files: 11 [testng] [2024-10-18 12:49:47,079] [main] Scan time: 1.892 s (172 ms/file) [testng] [2024-10-18 12:49:47,079] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 11 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-10-18 12:49:57,328] [pool-1-thread-1] Initializing /data/kira/DapiFitcTexRed003.jpg: [testng] 12:49:57,328 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 12:49:57,328 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:49:57,329 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-18_12-49-57.log] [testng] 12:49:57,330 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1e84923a - End of configuration. [testng] [2024-10-18 12:49:57,558] [pool-1-thread-11] Initializing /data/kira/DapiFitcTexRed006.png: [testng] 12:49:57,558 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 12:49:57,558 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:49:57,559 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-10-18_12-49-57.log] [testng] 12:49:57,560 |-INFO in ch.qos.logback.core.sift.SiftProcessor@38d3c252 - End of configuration. [testng] [2024-10-18 12:49:57,643] [pool-1-thread-10] Initializing /data/kira/DapiFitcTexRed001.jp2: [testng] 12:49:57,643 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 12:49:57,643 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:49:57,644 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-18_12-49-57.log] [testng] 12:49:57,644 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1dddca2 - End of configuration. [testng] [2024-10-18 12:49:58,464] [pool-1-thread-9] Initializing /data/kira/DapiFitcTexRed008R.tif: [testng] 12:49:58,464 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 12:49:58,464 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:49:58,465 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-18_12-49-58.log] [testng] 12:49:58,465 |-INFO in ch.qos.logback.core.sift.SiftProcessor@c5fe381 - End of configuration. [testng] [2024-10-18 12:49:59,887] [pool-1-thread-8] Initializing /data/kira/DapiFitcTexRed008BGR.tif: [testng] 12:49:59,888 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 12:49:59,888 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:49:59,888 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-18_12-49-59.log] [testng] 12:49:59,889 |-INFO in ch.qos.logback.core.sift.SiftProcessor@74b81498 - End of configuration. [testng] [2024-10-18 12:50:01,354] [pool-1-thread-7] Initializing /data/kira/DapiFitcTexRed008B.tif: [testng] 12:50:01,355 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 12:50:01,355 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:50:01,356 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-18_12-50-01.log] [testng] 12:50:01,356 |-INFO in ch.qos.logback.core.sift.SiftProcessor@29f2c0be - End of configuration. [testng] [2024-10-18 12:50:02,831] [pool-1-thread-6] Initializing /data/kira/DapiFitcTexRed008G.tif: [testng] 12:50:02,831 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 12:50:02,831 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:50:02,832 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-18_12-50-02.log] [testng] 12:50:02,832 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3b095d4d - End of configuration. [testng] [2024-10-18 12:50:04,261] [pool-1-thread-5] Initializing /data/kira/DapiFitcTexRed005.bmp: [testng] 12:50:04,261 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 12:50:04,261 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:50:04,262 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-18_12-50-04.log] [testng] 12:50:04,262 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6192717b - End of configuration. [testng] [2024-10-18 12:50:04,405] [pool-1-thread-4] Initializing /data/kira/DapiFitcTexRed004.tif: [testng] 12:50:04,405 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 12:50:04,405 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:50:04,406 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-18_12-50-04.log] [testng] 12:50:04,407 |-INFO in ch.qos.logback.core.sift.SiftProcessor@25c36d0e - End of configuration. [testng] [2024-10-18 12:50:05,824] [pool-1-thread-3] Initializing /data/kira/DapiFitcTexRed007.gif: [testng] 12:50:05,824 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 12:50:05,824 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:50:05,825 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-18_12-50-05.log] [testng] 12:50:05,825 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7fff832c - End of configuration. [testng] [2024-10-18 12:50:05,983] [pool-1-thread-2] Initializing /data/kira/DapiFitcTexRed008.jp2: [testng] 12:50:05,984 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 12:50:05,984 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:50:05,984 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-18_12-50-05.log] [testng] 12:50:05,985 |-INFO in ch.qos.logback.core.sift.SiftProcessor@49d23536 - End of configuration. [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 583, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 38 seconds Finished: SUCCESS