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Started by upstream project "BIOFORMATS-test-repo" build number 293 originally caused by: Started by upstream project "Trigger" build number 312 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder [BIOFORMATS-test-folder] $ /bin/bash -xe /tmp/jenkins12795054142082082213.sh + '[' mrw = slidebook ']' ++ date +%u + '[' 2 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_46337_merge_ci -v /uod/idr/repos/curated/mrw:/data -v /uod/idr-scratch/merge-ci/curated/mrw:/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 [javac] warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] 1 warning test-automated: [testng] WARNING: An illegal reflective access operation has occurred [testng] WARNING: Illegal reflective access by org.kohsuke.file_leak_detector.Listener (file:/home/build/.m2/repository/org/kohsuke/file-leak-detector/1.18/file-leak-detector-1.18-jar-with-dependencies.jar) to field java.net.SocketImpl.socket [testng] WARNING: Please consider reporting this to the maintainers of org.kohsuke.file_leak_detector.Listener [testng] WARNING: Use --illegal-access=warn to enable warnings of further illegal reflective access operations [testng] WARNING: All illegal access operations will be denied in a future release [testng] File leak detector installed [testng] 06:18:26,341 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 06:18:26,342 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - No custom configurators were discovered as a service. [testng] 06:18:26,342 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 06:18:26,343 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 06:18:26,344 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 06:18:26,344 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 06:18:26,344 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 06:18:26,344 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 06:18:26,345 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 06:18:26,345 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 06:18:26,346 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 06:18:26,346 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 06:18:26,506 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 06:18:26,506 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 06:18:26,527 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 06:18:26,527 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 06:18:26,532 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 06:18:26,532 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 06:18:26,532 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 06:18:26,533 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 06:18:26,533 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@45099dd3 - End of configuration. [testng] 06:18:26,533 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@60099951 - Registering current configuration as safe fallback point [testng] 06:18:26,533 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 188 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-12-17 06:18:26,542] [main] java.version = 11.0.16 [testng] 06:18:26,545 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 06:18:26,545 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:18:26,585 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-17_06-18-26.log] [testng] 06:18:26,586 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21be3395 - End of configuration. [testng] [2024-12-17 06:18:26,588] [main] testng.directory = /data [testng] [2024-12-17 06:18:26,588] [main] testng.configDirectory = /config [testng] [2024-12-17 06:18:26,603] [main] testng.multiplier = 1.0 [testng] [2024-12-17 06:18:26,605] [main] testng.in-memory = false [testng] [2024-12-17 06:18:26,605] [main] testng.allow-missing = false [testng] [2024-12-17 06:18:26,605] [main] user.language = en [testng] [2024-12-17 06:18:26,606] [main] user.country = ${user.country} [testng] [2024-12-17 06:18:26,606] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-12-17 06:18:27,183] [main] ---------------------------------------- [testng] [2024-12-17 06:18:27,183] [main] Total files: 19 [testng] [2024-12-17 06:18:27,183] [main] Scan time: 0.577 s (30 ms/file) [testng] [2024-12-17 06:18:27,183] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 19 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-12-17 06:18:55,283] [pool-1-thread-1] Initializing /data/samples/05-Aug-17_bokeh_0215_400.mrw: [testng] 06:18:55,283 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 06:18:55,283 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:18:55,285 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-17_06-18-55.log] [testng] 06:18:55,285 |-INFO in ch.qos.logback.core.sift.SiftProcessor@732bd6aa - End of configuration. [testng] [2024-12-17 06:18:56,729] [pool-1-thread-12] Initializing /data/samples/400R PICT0003.MRW: [testng] 06:18:56,730 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 06:18:56,730 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:18:56,748 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-17_06-18-56.log] [testng] 06:18:56,749 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4ad4fb32 - End of configuration. [testng] [2024-12-17 06:18:58,016] [pool-1-thread-11] Initializing /data/samples/05-Aug-17_bokeh_0214_400.mrw: [testng] 06:18:58,016 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 06:18:58,016 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:18:58,017 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-17_06-18-58.log] [testng] 06:18:58,018 |-INFO in ch.qos.logback.core.sift.SiftProcessor@612b2329 - End of configuration. [testng] [2024-12-17 06:18:59,335] [pool-1-thread-10] Initializing /data/samples/05-Sep-22_statua_0818.mrw: [testng] 06:18:59,336 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 06:18:59,336 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:18:59,337 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-17_06-18-59.log] [testng] 06:18:59,337 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7736b718 - End of configuration. [testng] [2024-12-17 06:19:01,175] [pool-1-thread-9] Initializing /data/samples/05-Sep-10_nyc_swiatla_0584.mrw: [testng] 06:19:01,175 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 06:19:01,175 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:19:01,176 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-17_06-19-01.log] [testng] 06:19:01,176 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1bcd6e2f - End of configuration. [testng] [2024-12-17 06:19:02,619] [pool-1-thread-8] Initializing /data/samples/200R PICT0002.MRW: [testng] 06:19:02,620 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 06:19:02,620 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:19:02,620 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-17_06-19-02.log] [testng] 06:19:02,621 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5d1a6369 - End of configuration. [testng] [2024-12-17 06:19:03,718] [pool-1-thread-7] Initializing /data/samples/05-Sep-22_statua_0800.mrw: [testng] 06:19:03,719 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 06:19:03,719 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:19:03,720 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-17_06-19-03.log] [testng] 06:19:03,721 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4cf2caae - End of configuration. [testng] [2024-12-17 06:19:04,889] [pool-1-thread-6] Initializing /data/samples/05-Sep-11_nyc_swiatla_0612.mrw: [testng] 06:19:04,890 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 06:19:04,890 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:19:04,894 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-17_06-19-04.log] [testng] 06:19:04,895 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3ee01919 - End of configuration. [testng] [2024-12-17 06:19:06,240] [pool-1-thread-5] Initializing /data/samples/05-Sep-03_duperele_0472.mrw: [testng] 06:19:06,241 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 06:19:06,241 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:19:06,241 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-17_06-19-06.log] [testng] 06:19:06,242 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4d8e1d55 - End of configuration. [testng] [2024-12-17 06:19:07,432] [pool-1-thread-4] Initializing /data/samples/05-Aug-21_duperele_0353.mrw: [testng] 06:19:07,432 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 06:19:07,432 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:19:07,433 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-17_06-19-07.log] [testng] 06:19:07,434 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2389ec92 - End of configuration. [testng] [2024-12-17 06:19:08,623] [pool-1-thread-3] Initializing /data/samples/05-Sep-22_statua_0837.mrw: [testng] 06:19:08,623 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 06:19:08,623 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:19:08,624 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-17_06-19-08.log] [testng] 06:19:08,624 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3850478f - End of configuration. [testng] [2024-12-17 06:19:10,035] [pool-1-thread-2] Initializing /data/samples/1600R PICT0005.MRW: [testng] 06:19:10,035 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 06:19:10,035 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:19:10,035 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-17_06-19-10.log] [testng] 06:19:10,036 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1fa55421 - End of configuration. [testng] [2024-12-17 06:19:28,210] [pool-1-thread-11] Initializing /data/samples/05-Sep-11_nyc_swiatla_0619.mrw: [testng] [2024-12-17 06:19:29,618] [pool-1-thread-4] Initializing /data/samples/800R PICT0010.MRW: [testng] [2024-12-17 06:19:31,276] [pool-1-thread-6] Initializing /data/samples/3200R PICT0006.MRW: [testng] [2024-12-17 06:19:32,812] [pool-1-thread-10] Initializing /data/samples/05-Sep-07_nyc_0531.mrw: [testng] [2024-12-17 06:19:34,409] [pool-1-thread-2] Initializing /data/samples/05-Sep-14_sigma_0698.mrw: [testng] [2024-12-17 06:19:35,907] [pool-1-thread-9] Initializing /data/samples/05-Aug-17_manhatan_0321.mrw: [testng] [2024-12-17 06:19:37,359] [pool-1-thread-5] Initializing /data/samples/100R PICT0001.MRW: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1007, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 1 minute 28 seconds Finished: SUCCESS