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Started by upstream project "BIOFORMATS-test-repo" build number 294 originally caused by: Started by upstream project "Trigger" build number 313 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@8 [BIOFORMATS-test-folder@8] $ /bin/bash -xe /tmp/jenkins1085864989115193288.sh + '[' imagepro = slidebook ']' ++ date +%u + '[' 3 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_46565_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] 16:12:56,067 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 16:12:56,068 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - No custom configurators were discovered as a service. [testng] 16:12:56,068 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 16:12:56,069 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 16:12:56,069 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 16:12:56,069 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 16:12:56,070 |-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] 16:12:56,070 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 16:12:56,070 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 16:12:56,071 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 16:12:56,071 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 16:12:56,071 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 16:12:56,222 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 16:12:56,222 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 16:12:56,242 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 16:12:56,242 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 16:12:56,246 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 16:12:56,246 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 16:12:56,246 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 16:12:56,247 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 16:12:56,247 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2e3967ea - End of configuration. [testng] 16:12:56,248 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@2e6a8155 - Registering current configuration as safe fallback point [testng] 16:12:56,248 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 178 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-12-18 16:12:56,256] [main] java.version = 17.0.2 [testng] 16:12:56,259 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 16:12:56,259 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:12:56,296 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-18_16-12-56.log] [testng] 16:12:56,298 |-INFO in ch.qos.logback.core.sift.SiftProcessor@798162bc - End of configuration. [testng] [2024-12-18 16:12:56,299] [main] testng.directory = /data [testng] [2024-12-18 16:12:56,300] [main] testng.configDirectory = /config [testng] [2024-12-18 16:12:56,308] [main] testng.multiplier = 1.0 [testng] [2024-12-18 16:12:56,308] [main] testng.in-memory = false [testng] [2024-12-18 16:12:56,309] [main] testng.allow-missing = false [testng] [2024-12-18 16:12:56,309] [main] user.language = en [testng] [2024-12-18 16:12:56,309] [main] user.country = ${user.country} [testng] [2024-12-18 16:12:56,309] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-12-18 16:13:25,590] [main] ---------------------------------------- [testng] [2024-12-18 16:13:25,591] [main] Total files: 22 [testng] [2024-12-18 16:13:25,591] [main] Scan time: 29.281 s (1330 ms/file) [testng] [2024-12-18 16:13:25,591] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 21 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-12-18 16:14:09,749] [pool-1-thread-1] Initializing /data/converted/NESb_C2_TP7.ipw: [testng] 16:14:09,749 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 16:14:09,749 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:14:09,750 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-18_16-14-09.log] [testng] 16:14:09,750 |-INFO in ch.qos.logback.core.sift.SiftProcessor@40a9289c - End of configuration. [testng] [2024-12-18 16:14:10,782] [pool-1-thread-12] Initializing /data/alex/AFAset0003.ips: [testng] 16:14:10,782 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 16:14:10,782 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:14:10,783 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-18_16-14-10.log] [testng] 16:14:10,783 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1bd4e928 - End of configuration. [testng] [2024-12-18 16:14:11,782] [pool-1-thread-11] Initializing /data/converted/clown8c.tif: [testng] 16:14:11,782 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 16:14:11,782 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:14:11,783 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-18_16-14-11.log] [testng] 16:14:11,783 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7909862b - End of configuration. [testng] [2024-12-18 16:14:14,351] [pool-1-thread-10] Initializing /data/converted/mitosis-test.ipw: [testng] 16:14:14,351 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 16:14:14,351 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:14:14,352 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-18_16-14-14.log] [testng] 16:14:14,352 |-INFO in ch.qos.logback.core.sift.SiftProcessor@26c43e99 - End of configuration. [testng] [2024-12-18 16:14:15,410] [pool-1-thread-9] Initializing /data/converted/clown.seq: [testng] 16:14:15,410 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 16:14:15,410 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:14:15,410 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-18_16-14-15.log] [testng] 16:14:15,411 |-INFO in ch.qos.logback.core.sift.SiftProcessor@727ab100 - End of configuration. [testng] [2024-12-18 16:14:16,777] [pool-1-thread-8] Initializing /data/samples/HEART.SEQ: [testng] 16:14:16,777 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 16:14:16,777 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:14:16,778 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-18_16-14-16.log] [testng] 16:14:16,778 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5f6249c - End of configuration. [testng] [2024-12-18 16:14:17,782] [pool-1-thread-7] Initializing /data/converted/dub01.ipw: [testng] 16:14:17,782 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 16:14:17,782 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:14:17,783 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-18_16-14-17.log] [testng] 16:14:17,783 |-INFO in ch.qos.logback.core.sift.SiftProcessor@61f761f5 - End of configuration. [testng] [2024-12-18 16:14:18,934] [pool-1-thread-6] Initializing /data/converted/clown.tif: [testng] 16:14:18,934 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 16:14:18,934 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:14:18,935 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-18_16-14-18.log] [testng] 16:14:18,935 |-INFO in ch.qos.logback.core.sift.SiftProcessor@51137eac - End of configuration. [testng] [2024-12-18 16:14:19,822] [pool-1-thread-5] Initializing /data/samples/PROBE.TIF: [testng] 16:14:19,823 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 16:14:19,823 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:14:19,824 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-18_16-14-19.log] [testng] 16:14:19,824 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5a4c717f - End of configuration. [testng] [2024-12-18 16:14:20,663] [pool-1-thread-4] Initializing /data/converted/clown8c.ipw: [testng] 16:14:20,663 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 16:14:20,663 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:14:20,664 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-18_16-14-20.log] [testng] 16:14:20,664 |-INFO in ch.qos.logback.core.sift.SiftProcessor@545f1d51 - End of configuration. [testng] [2024-12-18 16:14:22,112] [pool-1-thread-3] Initializing /data/converted/clown8c.seq: [testng] 16:14:22,112 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 16:14:22,112 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:14:22,113 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-18_16-14-22.log] [testng] 16:14:22,113 |-INFO in ch.qos.logback.core.sift.SiftProcessor@261e4ae3 - End of configuration. [testng] [2024-12-18 16:14:23,058] [pool-1-thread-2] Initializing /data/converted/dub01.pic: [testng] 16:14:23,058 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 16:14:23,058 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:14:23,059 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-18_16-14-23.log] [testng] 16:14:23,059 |-INFO in ch.qos.logback.core.sift.SiftProcessor@463c8918 - End of configuration. [testng] [2024-12-18 16:14:32,535] [pool-1-thread-4] Initializing /data/samples/FLDUAL.TIF: [testng] [2024-12-18 16:14:34,662] [pool-1-thread-5] Initializing /data/xiuwen/head2.seq: [testng] [2024-12-18 16:14:35,595] [pool-1-thread-8] Initializing /data/converted/NESb_C2_TP7.tiff: [testng] [2024-12-18 16:14:38,528] [pool-1-thread-10] Initializing /data/converted/mitosis-test.tif: [testng] [2024-12-18 16:14:40,683] [pool-1-thread-3] Initializing /data/converted/NESb_C2_TP7.seq: [testng] [2024-12-18 16:14:42,915] [pool-1-thread-9] Initializing /data/samples/TISSUE.TIF: [testng] [2024-12-18 16:14:47,622] [pool-1-thread-6] Initializing /data/converted/mitosis-test.seq: [testng] [2024-12-18 16:14:50,343] [pool-1-thread-2] Initializing /data/converted/dub01.seq: [testng] [2024-12-18 16:14:51,776] [pool-1-thread-7] Initializing /data/converted/clown.ipw: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1113, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 9 minutes 51 seconds Finished: SUCCESS