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Started by upstream project "BIOFORMATS-test-repo" build number 251 originally caused by: Started by upstream project "Trigger" build number 275 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/jenkins4867832914372614704.sh + '[' mrw = slidebook ']' ++ date +%u + '[' 7 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_39575_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] Could not load field socket from SocketImpl: java.lang.NoSuchFieldException: socket [testng] Could not load field serverSocket from SocketImpl: java.lang.NoSuchFieldException: serverSocket [testng] File leak detector installed [testng] 03:32:49,631 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 03:32:49,632 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - No custom configurators were discovered as a service. [testng] 03:32:49,632 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 03:32:49,633 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 03:32:49,634 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 03:32:49,634 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 03:32:49,634 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 03:32:49,634 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 03:32:49,635 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 03:32:49,635 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 03:32:49,635 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 03:32:49,636 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 03:32:49,787 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 03:32:49,787 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 03:32:49,809 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 03:32:49,809 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 03:32:49,814 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 03:32:49,814 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 03:32:49,814 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 03:32:49,815 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 03:32:49,815 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2e3967ea - End of configuration. [testng] 03:32:49,816 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@2e6a8155 - Registering current configuration as safe fallback point [testng] 03:32:49,816 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 181 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-11-10 03:32:49,824] [main] java.version = 17.0.2 [testng] 03:32:49,827 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 03:32:49,827 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:32:49,866 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-10_03-32-49.log] [testng] 03:32:49,868 |-INFO in ch.qos.logback.core.sift.SiftProcessor@798162bc - End of configuration. [testng] [2024-11-10 03:32:49,870] [main] testng.directory = /data [testng] [2024-11-10 03:32:49,870] [main] testng.configDirectory = /config [testng] [2024-11-10 03:32:49,878] [main] testng.multiplier = 1.0 [testng] [2024-11-10 03:32:49,879] [main] testng.in-memory = false [testng] [2024-11-10 03:32:49,879] [main] testng.allow-missing = false [testng] [2024-11-10 03:32:49,879] [main] user.language = en [testng] [2024-11-10 03:32:49,879] [main] user.country = ${user.country} [testng] [2024-11-10 03:32:49,879] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-11-10 03:32:50,969] [main] ---------------------------------------- [testng] [2024-11-10 03:32:50,969] [main] Total files: 19 [testng] [2024-11-10 03:32:50,969] [main] Scan time: 1.089 s (57 ms/file) [testng] [2024-11-10 03:32:50,969] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 19 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-11-10 03:33:00,636] [pool-1-thread-1] Initializing /data/samples/800R PICT0010.MRW: [testng] 03:33:00,636 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 03:33:00,636 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:33:00,637 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-11-10_03-33-00.log] [testng] 03:33:00,638 |-INFO in ch.qos.logback.core.sift.SiftProcessor@f7a9f8d - End of configuration. [testng] [2024-11-10 03:33:01,107] [pool-1-thread-12] Initializing /data/samples/05-Sep-14_sigma_0698.mrw: [testng] 03:33:01,108 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 03:33:01,108 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:33:01,109 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-11-10_03-33-01.log] [testng] 03:33:01,109 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2450c3a2 - End of configuration. [testng] [2024-11-10 03:33:01,632] [pool-1-thread-11] Initializing /data/samples/3200R PICT0006.MRW: [testng] 03:33:01,632 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 03:33:01,634 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:33:01,635 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-11-10_03-33-01.log] [testng] 03:33:01,636 |-INFO in ch.qos.logback.core.sift.SiftProcessor@49b4576 - End of configuration. [testng] [2024-11-10 03:33:02,114] [pool-1-thread-10] Initializing /data/samples/100R PICT0001.MRW: [testng] 03:33:02,115 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 03:33:02,115 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:33:02,115 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-11-10_03-33-02.log] [testng] 03:33:02,116 |-INFO in ch.qos.logback.core.sift.SiftProcessor@538adf4a - End of configuration. [testng] [2024-11-10 03:33:02,569] [pool-1-thread-9] Initializing /data/samples/05-Aug-17_bokeh_0214_400.mrw: [testng] 03:33:02,570 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 03:33:02,570 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:33:02,571 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-11-10_03-33-02.log] [testng] 03:33:02,572 |-INFO in ch.qos.logback.core.sift.SiftProcessor@dd2ebf0 - End of configuration. [testng] [2024-11-10 03:33:03,055] [pool-1-thread-8] Initializing /data/samples/05-Aug-17_bokeh_0215_400.mrw: [testng] 03:33:03,055 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 03:33:03,055 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:33:03,056 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-11-10_03-33-03.log] [testng] 03:33:03,056 |-INFO in ch.qos.logback.core.sift.SiftProcessor@790a6afa - End of configuration. [testng] [2024-11-10 03:33:03,548] [pool-1-thread-7] Initializing /data/samples/05-Sep-22_statua_0800.mrw: [testng] 03:33:03,549 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 03:33:03,549 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:33:03,551 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-11-10_03-33-03.log] [testng] 03:33:03,551 |-INFO in ch.qos.logback.core.sift.SiftProcessor@41dcf5f2 - End of configuration. [testng] [2024-11-10 03:33:04,012] [pool-1-thread-6] Initializing /data/samples/400R PICT0003.MRW: [testng] 03:33:04,013 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 03:33:04,013 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:33:04,014 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-11-10_03-33-04.log] [testng] 03:33:04,014 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4fedd022 - End of configuration. [testng] [2024-11-10 03:33:04,479] [pool-1-thread-5] Initializing /data/samples/05-Aug-21_duperele_0353.mrw: [testng] 03:33:04,479 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 03:33:04,479 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:33:04,480 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-11-10_03-33-04.log] [testng] 03:33:04,480 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21368e1c - End of configuration. [testng] [2024-11-10 03:33:04,946] [pool-1-thread-4] Initializing /data/samples/05-Sep-22_statua_0837.mrw: [testng] 03:33:04,946 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 03:33:04,946 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:33:04,947 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-11-10_03-33-04.log] [testng] 03:33:04,947 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7ed65e2 - End of configuration. [testng] [2024-11-10 03:33:05,408] [pool-1-thread-3] Initializing /data/samples/05-Sep-07_nyc_0531.mrw: [testng] 03:33:05,408 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 03:33:05,409 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:33:05,409 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-11-10_03-33-05.log] [testng] 03:33:05,410 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6323a76a - End of configuration. [testng] [2024-11-10 03:33:05,913] [pool-1-thread-2] Initializing /data/samples/05-Sep-11_nyc_swiatla_0619.mrw: [testng] 03:33:05,913 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 03:33:05,913 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:33:05,914 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-11-10_03-33-05.log] [testng] 03:33:05,914 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7938f0d2 - End of configuration. [testng] [2024-11-10 03:33:16,082] [pool-1-thread-2] Initializing /data/samples/05-Sep-10_nyc_swiatla_0584.mrw: [testng] [2024-11-10 03:33:16,570] [pool-1-thread-1] Initializing /data/samples/05-Sep-03_duperele_0472.mrw: [testng] [2024-11-10 03:33:17,042] [pool-1-thread-10] Initializing /data/samples/05-Sep-11_nyc_swiatla_0612.mrw: [testng] [2024-11-10 03:33:17,525] [pool-1-thread-3] Initializing /data/samples/05-Sep-22_statua_0818.mrw: [testng] [2024-11-10 03:33:18,004] [pool-1-thread-4] Initializing /data/samples/1600R PICT0005.MRW: [testng] [2024-11-10 03:33:18,514] [pool-1-thread-6] Initializing /data/samples/05-Aug-17_manhatan_0321.mrw: [testng] [2024-11-10 03:33:18,954] [pool-1-thread-11] Initializing /data/samples/200R PICT0002.MRW: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1007, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 39 seconds Finished: SUCCESS