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Started by upstream project "BIOFORMATS-test-repo" build number 71 originally caused by: Started by upstream project "Trigger" build number 79 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/jenkins18049175069343853493.sh + '[' imagepro = slidebook ']' ++ date +%u + '[' 3 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_10791_merge_ci -v /uod/idr/repos/curated/imagepro:/data -v /uod/idr-scratch/merge-ci/curated/imagepro:/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] 05:13:50,427 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 05:13:50,428 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service. [testng] 05:13:50,428 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 05:13:50,429 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 05:13:50,430 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 05:13:50,430 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 05:13:50,430 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 05:13:50,430 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 05:13:50,431 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 05:13:50,431 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 05:13:50,432 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 05:13:50,432 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 05:13:50,617 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 05:13:50,617 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 05:13:50,640 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 05:13:50,640 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 05:13:50,645 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 05:13:50,645 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 05:13:50,645 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 05:13:50,646 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 05:13:50,646 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration. [testng] 05:13:50,647 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point [testng] 05:13:50,647 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 216 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-05-22 05:13:50,656] [main] java.version = 17.0.2 [testng] 05:13:50,659 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 05:13:50,659 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:13:50,699 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-05-22_05-13-50.log] [testng] 05:13:50,701 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration. [testng] [2024-05-22 05:13:50,703] [main] testng.directory = /data [testng] [2024-05-22 05:13:50,703] [main] testng.configDirectory = /config [testng] [2024-05-22 05:13:50,712] [main] testng.multiplier = 1.0 [testng] [2024-05-22 05:13:50,713] [main] testng.in-memory = false [testng] [2024-05-22 05:13:50,713] [main] testng.allow-missing = false [testng] [2024-05-22 05:13:50,713] [main] user.language = en [testng] [2024-05-22 05:13:50,713] [main] user.country = ${user.country} [testng] [2024-05-22 05:13:50,713] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-05-22 05:13:51,917] [main] ---------------------------------------- [testng] [2024-05-22 05:13:51,917] [main] Total files: 22 [testng] [2024-05-22 05:13:51,917] [main] Scan time: 1.204 s (54 ms/file) [testng] [2024-05-22 05:13:51,917] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 21 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-05-22 05:14:00,594] [pool-1-thread-1] Initializing /data/converted/mitosis-test.tif: [testng] 05:14:00,594 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 05:14:00,594 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:14:00,595 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-05-22_05-14-00.log] [testng] 05:14:00,596 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1b513707 - End of configuration. [testng] [2024-05-22 05:14:00,780] [pool-1-thread-12] Initializing /data/samples/TISSUE.TIF: [testng] 05:14:00,781 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 05:14:00,781 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:14:00,782 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-05-22_05-14-00.log] [testng] 05:14:00,782 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2ad6c9be - End of configuration. [testng] [2024-05-22 05:14:00,815] [pool-1-thread-11] Initializing /data/converted/NESb_C2_TP7.ipw: [testng] 05:14:00,815 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 05:14:00,815 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:14:00,816 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-05-22_05-14-00.log] [testng] 05:14:00,817 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2d3126aa - End of configuration. [testng] [2024-05-22 05:14:00,853] [pool-1-thread-10] Initializing /data/xiuwen/head2.seq: [testng] 05:14:00,853 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 05:14:00,853 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:14:00,854 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-05-22_05-14-00.log] [testng] 05:14:00,854 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3c6ed243 - End of configuration. [testng] [2024-05-22 05:14:00,951] [pool-1-thread-9] Initializing /data/converted/dub01.ipw: [testng] 05:14:00,951 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 05:14:00,951 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:14:00,952 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-05-22_05-14-00.log] [testng] 05:14:00,952 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3a69a46c - End of configuration. [testng] [2024-05-22 05:14:00,980] [pool-1-thread-8] Initializing /data/converted/clown.ipw: [testng] 05:14:00,980 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 05:14:00,980 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:14:00,981 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-05-22_05-14-00.log] [testng] 05:14:00,981 |-INFO in ch.qos.logback.core.sift.SiftProcessor@d90057d - End of configuration. [testng] [2024-05-22 05:14:00,997] [pool-1-thread-7] Initializing /data/converted/NESb_C2_TP7.seq: [testng] 05:14:00,997 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 05:14:00,997 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:14:00,998 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-05-22_05-14-00.log] [testng] 05:14:00,998 |-INFO in ch.qos.logback.core.sift.SiftProcessor@78ec7cc2 - End of configuration. [testng] [2024-05-22 05:14:01,026] [pool-1-thread-6] Initializing /data/converted/clown8c.seq: [testng] 05:14:01,026 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 05:14:01,026 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:14:01,027 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-05-22_05-14-01.log] [testng] 05:14:01,028 |-INFO in ch.qos.logback.core.sift.SiftProcessor@243e9552 - End of configuration. [testng] [2024-05-22 05:14:01,039] [pool-1-thread-5] Initializing /data/converted/mitosis-test.ipw: [testng] 05:14:01,039 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 05:14:01,039 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:14:01,040 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-05-22_05-14-01.log] [testng] 05:14:01,040 |-INFO in ch.qos.logback.core.sift.SiftProcessor@53d9392d - End of configuration. [testng] [2024-05-22 05:14:01,070] [pool-1-thread-4] Initializing /data/converted/clown.tif: [testng] 05:14:01,070 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 05:14:01,070 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:14:01,071 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-05-22_05-14-01.log] [testng] 05:14:01,071 |-INFO in ch.qos.logback.core.sift.SiftProcessor@644add94 - End of configuration. [testng] [2024-05-22 05:14:01,088] [pool-1-thread-3] Initializing /data/converted/clown.seq: [testng] 05:14:01,088 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 05:14:01,089 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:14:01,089 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-05-22_05-14-01.log] [testng] 05:14:01,090 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3eb955da - End of configuration. [testng] [2024-05-22 05:14:01,108] [pool-1-thread-2] Initializing /data/converted/clown8c.tif: [testng] 05:14:01,109 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 05:14:01,109 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:14:01,110 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-05-22_05-14-01.log] [testng] 05:14:01,110 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5946b398 - End of configuration. [testng] [2024-05-22 05:14:03,080] [pool-1-thread-8] Initializing /data/converted/dub01.seq: [testng] [2024-05-22 05:14:03,108] [pool-1-thread-4] Initializing /data/samples/HEART.SEQ: [testng] [2024-05-22 05:14:03,129] [pool-1-thread-6] Initializing /data/converted/NESb_C2_TP7.tiff: [testng] [2024-05-22 05:14:03,191] [pool-1-thread-3] Initializing /data/samples/FLDUAL.TIF: [testng] [2024-05-22 05:14:03,227] [pool-1-thread-5] Initializing /data/samples/PROBE.TIF: [testng] [2024-05-22 05:14:03,244] [pool-1-thread-2] Initializing /data/converted/dub01.pic: [testng] [2024-05-22 05:14:03,267] [pool-1-thread-9] Initializing /data/converted/clown8c.ipw: [testng] [2024-05-22 05:14:03,278] [pool-1-thread-12] Initializing /data/alex/AFAset0003.ips: [testng] [2024-05-22 05:14:03,293] [pool-1-thread-7] Initializing /data/converted/mitosis-test.seq: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1113, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 31 seconds Finished: SUCCESS