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Started by upstream project "BIOFORMATS-test-repo" build number 194 originally caused by: Started by user devspace Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@9 [BIOFORMATS-test-folder@9] $ /bin/bash -xe /tmp/jenkins10204000904158835921.sh + '[' imagepro = slidebook ']' ++ date +%u + '[' 4 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_30806_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warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] warning: [options] source value 8 is obsolete and will be removed in a future release [javac] warning: [options] target value 8 is obsolete and will be removed in a future release [javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options. [javac] 4 warnings 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] 15:36:12,764 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 15:36:12,765 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - No custom configurators were discovered as a service. [testng] 15:36:12,765 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 15:36:12,766 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 15:36:12,766 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 15:36:12,767 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 15:36:12,767 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 15:36:12,767 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 15:36:12,767 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 15:36:12,768 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 15:36:12,768 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 15:36:12,768 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 15:36:12,915 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 15:36:12,915 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 15:36:12,938 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 15:36:12,938 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 15:36:12,944 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 15:36:12,944 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 15:36:12,944 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 15:36:12,944 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 15:36:12,945 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@d9345cd - End of configuration. [testng] 15:36:12,945 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@48aca48b - Registering current configuration as safe fallback point [testng] 15:36:12,945 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 178 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-09-19 15:36:12,954] [main] java.version = 21 [testng] 15:36:12,957 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 15:36:12,957 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:36:12,996 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-09-19_15-36-12.log] [testng] 15:36:12,997 |-INFO in ch.qos.logback.core.sift.SiftProcessor@71687585 - End of configuration. [testng] [2024-09-19 15:36:12,998] [main] testng.directory = /data [testng] [2024-09-19 15:36:12,999] [main] testng.configDirectory = /config [testng] [2024-09-19 15:36:13,007] [main] testng.multiplier = 1.0 [testng] [2024-09-19 15:36:13,007] [main] testng.in-memory = false [testng] [2024-09-19 15:36:13,007] [main] testng.allow-missing = false [testng] [2024-09-19 15:36:13,007] [main] user.language = en [testng] [2024-09-19 15:36:13,007] [main] user.country = ${user.country} [testng] [2024-09-19 15:36:13,007] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-09-19 15:36:18,951] [main] ---------------------------------------- [testng] [2024-09-19 15:36:18,951] [main] Total files: 22 [testng] [2024-09-19 15:36:18,951] [main] Scan time: 5.944 s (270 ms/file) [testng] [2024-09-19 15:36:18,952] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 21 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-09-19 15:36:38,276] [pool-1-thread-1] Initializing /data/converted/NESb_C2_TP7.ipw: [testng] 15:36:38,277 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 15:36:38,277 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:36:38,279 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-09-19_15-36-38.log] [testng] 15:36:38,279 |-INFO in ch.qos.logback.core.sift.SiftProcessor@494b4ce4 - End of configuration. [testng] [2024-09-19 15:36:38,767] [pool-1-thread-12] Initializing /data/converted/mitosis-test.ipw: [testng] 15:36:38,768 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 15:36:38,768 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:36:38,768 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-09-19_15-36-38.log] [testng] 15:36:38,769 |-INFO in ch.qos.logback.core.sift.SiftProcessor@401df70b - End of configuration. [testng] [2024-09-19 15:36:39,263] [pool-1-thread-11] Initializing /data/samples/PROBE.TIF: [testng] 15:36:39,264 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 15:36:39,264 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:36:39,264 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-09-19_15-36-39.log] [testng] 15:36:39,265 |-INFO in ch.qos.logback.core.sift.SiftProcessor@93d1b98 - End of configuration. [testng] [2024-09-19 15:36:39,769] [pool-1-thread-10] Initializing /data/converted/clown8c.seq: [testng] 15:36:39,769 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 15:36:39,770 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:36:39,770 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-09-19_15-36-39.log] [testng] 15:36:39,771 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1e800c9f - End of configuration. [testng] [2024-09-19 15:36:40,280] [pool-1-thread-9] Initializing /data/converted/mitosis-test.seq: [testng] 15:36:40,280 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 15:36:40,280 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:36:40,281 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-09-19_15-36-40.log] [testng] 15:36:40,281 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13e8abbb - End of configuration. [testng] [2024-09-19 15:36:40,789] [pool-1-thread-8] Initializing /data/converted/clown8c.ipw: [testng] 15:36:40,789 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 15:36:40,790 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:36:40,790 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-09-19_15-36-40.log] [testng] 15:36:40,791 |-INFO in ch.qos.logback.core.sift.SiftProcessor@643e733a - End of configuration. [testng] [2024-09-19 15:36:41,269] [pool-1-thread-7] Initializing /data/samples/TISSUE.TIF: [testng] 15:36:41,269 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 15:36:41,269 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:36:41,270 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-09-19_15-36-41.log] [testng] 15:36:41,270 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37ba8f6a - End of configuration. [testng] [2024-09-19 15:36:42,460] [pool-1-thread-6] Initializing /data/samples/FLDUAL.TIF: [testng] 15:36:42,460 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 15:36:42,460 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:36:42,461 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-09-19_15-36-42.log] [testng] 15:36:42,461 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2bce9cdc - End of configuration. [testng] [2024-09-19 15:36:43,669] [pool-1-thread-5] Initializing /data/converted/NESb_C2_TP7.seq: [testng] 15:36:43,669 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 15:36:43,669 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:36:43,670 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-09-19_15-36-43.log] [testng] 15:36:43,671 |-INFO in ch.qos.logback.core.sift.SiftProcessor@67b535aa - End of configuration. [testng] [2024-09-19 15:36:44,174] [pool-1-thread-4] Initializing /data/converted/clown.ipw: [testng] 15:36:44,174 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 15:36:44,174 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:36:44,175 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-09-19_15-36-44.log] [testng] 15:36:44,175 |-INFO in ch.qos.logback.core.sift.SiftProcessor@47e3378c - End of configuration. [testng] [2024-09-19 15:36:44,656] [pool-1-thread-3] Initializing /data/converted/clown.tif: [testng] 15:36:44,656 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 15:36:44,656 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:36:44,657 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-09-19_15-36-44.log] [testng] 15:36:44,657 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1e1162c0 - End of configuration. [testng] [2024-09-19 15:36:45,169] [pool-1-thread-2] Initializing /data/converted/dub01.ipw: [testng] 15:36:45,169 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 15:36:45,169 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:36:45,170 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-09-19_15-36-45.log] [testng] 15:36:45,170 |-INFO in ch.qos.logback.core.sift.SiftProcessor@a0540c2 - End of configuration. [testng] [2024-09-19 15:36:50,696] [pool-1-thread-12] Initializing /data/converted/mitosis-test.tif: [testng] [2024-09-19 15:36:51,982] [pool-1-thread-8] Initializing /data/converted/dub01.seq: [testng] [2024-09-19 15:36:52,512] [pool-1-thread-4] Initializing /data/alex/AFAset0003.ips: [testng] [2024-09-19 15:36:53,029] [pool-1-thread-10] Initializing /data/converted/dub01.pic: [testng] [2024-09-19 15:36:53,520] [pool-1-thread-3] Initializing /data/converted/clown8c.tif: [testng] [2024-09-19 15:36:54,755] [pool-1-thread-9] Initializing /data/converted/clown.seq: [testng] [2024-09-19 15:36:55,297] [pool-1-thread-2] Initializing /data/xiuwen/head2.seq: [testng] [2024-09-19 15:36:55,923] [pool-1-thread-11] Initializing /data/samples/HEART.SEQ: [testng] [2024-09-19 15:36:56,500] [pool-1-thread-1] Initializing /data/converted/NESb_C2_TP7.tiff: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1113, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 3 minutes 20 seconds Finished: SUCCESS