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Started by upstream project "BIOFORMATS-test-repo" build number 265 originally caused by: Started by upstream project "Trigger" build number 288 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/jenkins13282189542004134761.sh + '[' mrw = slidebook ']' ++ date +%u + '[' 6 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_41871_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] 03:18:37,310 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 03:18:37,311 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - No custom configurators were discovered as a service. [testng] 03:18:37,311 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 03:18:37,312 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 03:18:37,313 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 03:18:37,313 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 03:18:37,313 |-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] 03:18:37,313 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 03:18:37,314 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 03:18:37,314 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 03:18:37,315 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 03:18:37,315 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 03:18:37,480 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 03:18:37,480 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 03:18:37,502 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 03:18:37,502 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 03:18:37,507 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 03:18:37,507 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 03:18:37,508 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 03:18:37,508 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 03:18:37,508 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@45099dd3 - End of configuration. [testng] 03:18:37,509 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@60099951 - Registering current configuration as safe fallback point [testng] 03:18:37,509 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 195 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-11-23 03:18:37,517] [main] java.version = 11.0.16 [testng] 03:18:37,520 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 03:18:37,520 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:18:37,561 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-23_03-18-37.log] [testng] 03:18:37,563 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21be3395 - End of configuration. [testng] [2024-11-23 03:18:37,564] [main] testng.directory = /data [testng] [2024-11-23 03:18:37,565] [main] testng.configDirectory = /config [testng] [2024-11-23 03:18:37,574] [main] testng.multiplier = 1.0 [testng] [2024-11-23 03:18:37,575] [main] testng.in-memory = false [testng] [2024-11-23 03:18:37,575] [main] testng.allow-missing = false [testng] [2024-11-23 03:18:37,575] [main] user.language = en [testng] [2024-11-23 03:18:37,575] [main] user.country = ${user.country} [testng] [2024-11-23 03:18:37,575] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-11-23 03:18:38,016] [main] ---------------------------------------- [testng] [2024-11-23 03:18:38,016] [main] Total files: 19 [testng] [2024-11-23 03:18:38,016] [main] Scan time: 0.441 s (23 ms/file) [testng] [2024-11-23 03:18:38,016] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 19 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-11-23 03:18:48,640] [pool-1-thread-1] Initializing /data/samples/05-Sep-03_duperele_0472.mrw: [testng] 03:18:48,640 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 03:18:48,640 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:18:48,642 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-11-23_03-18-48.log] [testng] 03:18:48,642 |-INFO in ch.qos.logback.core.sift.SiftProcessor@323bf090 - End of configuration. [testng] [2024-11-23 03:18:49,155] [pool-1-thread-12] Initializing /data/samples/05-Aug-21_duperele_0353.mrw: [testng] 03:18:49,155 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 03:18:49,155 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:18:49,163 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-11-23_03-18-49.log] [testng] 03:18:49,163 |-INFO in ch.qos.logback.core.sift.SiftProcessor@29172b00 - End of configuration. [testng] [2024-11-23 03:18:49,696] [pool-1-thread-11] Initializing /data/samples/1600R PICT0005.MRW: [testng] 03:18:49,696 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 03:18:49,696 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:18:49,697 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-11-23_03-18-49.log] [testng] 03:18:49,697 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6a04a13b - End of configuration. [testng] [2024-11-23 03:18:50,166] [pool-1-thread-10] Initializing /data/samples/05-Sep-14_sigma_0698.mrw: [testng] 03:18:50,166 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 03:18:50,166 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:18:50,167 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-11-23_03-18-50.log] [testng] 03:18:50,168 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6647ca85 - End of configuration. [testng] [2024-11-23 03:18:50,668] [pool-1-thread-9] Initializing /data/samples/800R PICT0010.MRW: [testng] 03:18:50,668 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 03:18:50,668 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:18:50,669 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-11-23_03-18-50.log] [testng] 03:18:50,669 |-INFO in ch.qos.logback.core.sift.SiftProcessor@61c781c1 - End of configuration. [testng] [2024-11-23 03:18:51,185] [pool-1-thread-8] Initializing /data/samples/100R PICT0001.MRW: [testng] 03:18:51,185 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 03:18:51,186 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:18:51,186 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-11-23_03-18-51.log] [testng] 03:18:51,186 |-INFO in ch.qos.logback.core.sift.SiftProcessor@576ccf87 - End of configuration. [testng] [2024-11-23 03:18:51,759] [pool-1-thread-7] Initializing /data/samples/05-Sep-22_statua_0800.mrw: [testng] 03:18:51,759 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 03:18:51,759 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:18:51,760 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-11-23_03-18-51.log] [testng] 03:18:51,760 |-INFO in ch.qos.logback.core.sift.SiftProcessor@52879a4b - End of configuration. [testng] [2024-11-23 03:18:52,312] [pool-1-thread-6] Initializing /data/samples/05-Sep-11_nyc_swiatla_0612.mrw: [testng] 03:18:52,312 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 03:18:52,312 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:18:52,313 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-11-23_03-18-52.log] [testng] 03:18:52,313 |-INFO in ch.qos.logback.core.sift.SiftProcessor@671ff381 - End of configuration. [testng] [2024-11-23 03:18:52,866] [pool-1-thread-5] Initializing /data/samples/05-Sep-10_nyc_swiatla_0584.mrw: [testng] 03:18:52,867 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 03:18:52,867 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:18:52,867 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-11-23_03-18-52.log] [testng] 03:18:52,867 |-INFO in ch.qos.logback.core.sift.SiftProcessor@19b5ff60 - End of configuration. [testng] [2024-11-23 03:18:53,393] [pool-1-thread-4] Initializing /data/samples/200R PICT0002.MRW: [testng] 03:18:53,394 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 03:18:53,394 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:18:53,395 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-11-23_03-18-53.log] [testng] 03:18:53,395 |-INFO in ch.qos.logback.core.sift.SiftProcessor@420a4eee - End of configuration. [testng] [2024-11-23 03:18:53,941] [pool-1-thread-3] Initializing /data/samples/400R PICT0003.MRW: [testng] 03:18:53,941 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 03:18:53,941 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:18:53,942 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-11-23_03-18-53.log] [testng] 03:18:53,942 |-INFO in ch.qos.logback.core.sift.SiftProcessor@25ad83a7 - End of configuration. [testng] [2024-11-23 03:18:54,416] [pool-1-thread-2] Initializing /data/samples/05-Aug-17_manhatan_0321.mrw: [testng] 03:18:54,416 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 03:18:54,416 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:18:54,417 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-11-23_03-18-54.log] [testng] 03:18:54,417 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7239624e - End of configuration. [testng] [2024-11-23 03:19:05,656] [pool-1-thread-10] Initializing /data/samples/05-Sep-22_statua_0818.mrw: [testng] [2024-11-23 03:19:06,509] [pool-1-thread-1] Initializing /data/samples/05-Aug-17_bokeh_0215_400.mrw: [testng] [2024-11-23 03:19:07,315] [pool-1-thread-11] Initializing /data/samples/05-Aug-17_bokeh_0214_400.mrw: [testng] [2024-11-23 03:19:08,099] [pool-1-thread-12] Initializing /data/samples/05-Sep-11_nyc_swiatla_0619.mrw: [testng] [2024-11-23 03:19:08,741] [pool-1-thread-7] Initializing /data/samples/05-Sep-22_statua_0837.mrw: [testng] [2024-11-23 03:19:09,300] [pool-1-thread-5] Initializing /data/samples/05-Sep-07_nyc_0531.mrw: [testng] [2024-11-23 03:19:09,920] [pool-1-thread-4] Initializing /data/samples/3200R PICT0006.MRW: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1007, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 45 seconds Finished: SUCCESS