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Started by upstream project "BIOFORMATS-test-repo" build number 273 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/jenkins8331526858488059583.sh + '[' nikon-jp2 = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_43105_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] 12:12:24,815 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 12:12:24,817 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 12:12:24,817 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 12:12:24,818 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 12:12:24,818 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 12:12:24,818 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 12:12:24,818 |-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] 12:12:24,818 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 12:12:24,819 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 12:12:24,819 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 12:12:24,819 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 12:12:24,819 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 12:12:25,044 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 12:12:25,045 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 12:12:25,071 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 12:12:25,071 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 12:12:25,079 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 12:12:25,079 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 12:12:25,079 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 12:12:25,080 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 12:12:25,080 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 12:12:25,081 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 12:12:25,081 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 262 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-11-29 12:12:25,091] [main] java.version = 1.8.0_342 [testng] 12:12:25,094 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 12:12:25,094 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:12:25,140 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-29_12-12-25.log] [testng] 12:12:25,141 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2024-11-29 12:12:25,143] [main] testng.directory = /data [testng] [2024-11-29 12:12:25,143] [main] testng.configDirectory = /config [testng] [2024-11-29 12:12:25,155] [main] testng.multiplier = 1.0 [testng] [2024-11-29 12:12:25,155] [main] testng.in-memory = false [testng] [2024-11-29 12:12:25,155] [main] testng.allow-missing = false [testng] [2024-11-29 12:12:25,155] [main] user.language = en [testng] [2024-11-29 12:12:25,156] [main] user.country = ${user.country} [testng] [2024-11-29 12:12:25,156] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-11-29 12:12:28,083] [main] ---------------------------------------- [testng] [2024-11-29 12:12:28,083] [main] Total files: 11 [testng] [2024-11-29 12:12:28,083] [main] Scan time: 2.926 s (266 ms/file) [testng] [2024-11-29 12:12:28,083] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 11 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-11-29 12:12:46,148] [pool-1-thread-1] Initializing /data/kira/DapiFitcTexRed003.jpg: [testng] 12:12:46,148 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 12:12:46,148 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:12:46,149 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-11-29_12-12-46.log] [testng] 12:12:46,150 |-INFO in ch.qos.logback.core.sift.SiftProcessor@51855d3a - End of configuration. [testng] [2024-11-29 12:12:46,542] [pool-1-thread-11] Initializing /data/kira/DapiFitcTexRed006.png: [testng] 12:12:46,542 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 12:12:46,543 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:12:46,544 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-11-29_12-12-46.log] [testng] 12:12:46,544 |-INFO in ch.qos.logback.core.sift.SiftProcessor@bb0e820 - End of configuration. [testng] [2024-11-29 12:12:46,693] [pool-1-thread-10] Initializing /data/kira/DapiFitcTexRed001.jp2: [testng] 12:12:46,693 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 12:12:46,693 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:12:46,694 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-11-29_12-12-46.log] [testng] 12:12:46,694 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7a4f05c - End of configuration. [testng] [2024-11-29 12:12:48,161] [pool-1-thread-9] Initializing /data/kira/DapiFitcTexRed008R.tif: [testng] 12:12:48,161 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 12:12:48,161 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:12:48,161 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-11-29_12-12-48.log] [testng] 12:12:48,162 |-INFO in ch.qos.logback.core.sift.SiftProcessor@75baab4b - End of configuration. [testng] [2024-11-29 12:12:50,776] [pool-1-thread-8] Initializing /data/kira/DapiFitcTexRed008BGR.tif: [testng] 12:12:50,777 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 12:12:50,777 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:12:50,777 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-11-29_12-12-50.log] [testng] 12:12:50,778 |-INFO in ch.qos.logback.core.sift.SiftProcessor@d5f692c - End of configuration. [testng] [2024-11-29 12:12:53,257] [pool-1-thread-7] Initializing /data/kira/DapiFitcTexRed008B.tif: [testng] 12:12:53,257 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 12:12:53,257 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:12:53,258 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-11-29_12-12-53.log] [testng] 12:12:53,258 |-INFO in ch.qos.logback.core.sift.SiftProcessor@52bfc715 - End of configuration. [testng] [2024-11-29 12:12:55,568] [pool-1-thread-6] Initializing /data/kira/DapiFitcTexRed008G.tif: [testng] 12:12:55,568 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 12:12:55,568 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:12:55,568 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-11-29_12-12-55.log] [testng] 12:12:55,569 |-INFO in ch.qos.logback.core.sift.SiftProcessor@776c718 - End of configuration. [testng] [2024-11-29 12:12:58,454] [pool-1-thread-5] Initializing /data/kira/DapiFitcTexRed005.bmp: [testng] 12:12:58,455 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 12:12:58,455 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:12:58,456 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-11-29_12-12-58.log] [testng] 12:12:58,456 |-INFO in ch.qos.logback.core.sift.SiftProcessor@205e6957 - End of configuration. [testng] [2024-11-29 12:12:58,750] [pool-1-thread-4] Initializing /data/kira/DapiFitcTexRed004.tif: [testng] 12:12:58,750 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 12:12:58,750 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:12:58,751 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-11-29_12-12-58.log] [testng] 12:12:58,751 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6b85eb2d - End of configuration. [testng] [2024-11-29 12:13:01,199] [pool-1-thread-3] Initializing /data/kira/DapiFitcTexRed007.gif: [testng] 12:13:01,199 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 12:13:01,199 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:13:01,200 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-11-29_12-13-01.log] [testng] 12:13:01,200 |-INFO in ch.qos.logback.core.sift.SiftProcessor@55f3c07a - End of configuration. [testng] [2024-11-29 12:13:01,452] [pool-1-thread-2] Initializing /data/kira/DapiFitcTexRed008.jp2: [testng] 12:13:01,452 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 12:13:01,452 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:13:01,452 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-11-29_12-13-01.log] [testng] 12:13:01,453 |-INFO in ch.qos.logback.core.sift.SiftProcessor@298c59bd - 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: 59 seconds Finished: SUCCESS