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Started by upstream project "BIOFORMATS-test-repo" build number 385 originally caused by: Started by upstream project "Trigger" build number 406 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@4 [BIOFORMATS-test-folder@4] $ /bin/bash -xe /tmp/jenkins7913137767617672611.sh + '[' cellomics = slidebook ']' ++ date +%u + '[' 4 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_60951_merge_ci -v /uod/idr/repos/curated/cellomics:/data -v /uod/idr-scratch/merge-ci/curated/cellomics:/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warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] warning: [options] source value 8 is obsolete and will be removed in a future release [javac] warning: [options] target value 8 is obsolete and will be removed in a future release [javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options.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] 07:30:11,860 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15 [testng] 07:30:11,862 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - No custom configurators were discovered as a service. [testng] 07:30:11,862 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 07:30:11,863 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 07:30:11,863 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 07:30:11,863 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 07:30:11,864 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 07:30:11,864 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 07:30:11,864 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 07:30:11,865 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 07:30:11,865 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 07:30:11,865 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 07:30:12,022 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 07:30:12,023 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 07:30:12,047 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 07:30:12,047 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 07:30:12,053 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 07:30:12,053 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 07:30:12,053 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 07:30:12,053 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 07:30:12,053 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@4310d43 - End of configuration. [testng] 07:30:12,054 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@1b11171f - Registering current configuration as safe fallback point [testng] 07:30:12,054 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 190 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-03-20 07:30:12,063] [main] java.version = 21 [testng] 07:30:12,066 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 07:30:12,066 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:30:12,108 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-03-20_07-30-12.log] [testng] 07:30:12,110 |-INFO in ch.qos.logback.core.sift.SiftProcessor@69504ae9 - End of configuration. [testng] [2025-03-20 07:30:12,111] [main] testng.directory = /data [testng] [2025-03-20 07:30:12,112] [main] testng.configDirectory = /config [testng] [2025-03-20 07:30:12,120] [main] testng.multiplier = 1.0 [testng] [2025-03-20 07:30:12,121] [main] testng.in-memory = false [testng] [2025-03-20 07:30:12,121] [main] testng.allow-missing = false [testng] [2025-03-20 07:30:12,121] [main] user.language = en [testng] [2025-03-20 07:30:12,121] [main] user.country = ${user.country} [testng] [2025-03-20 07:30:12,121] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2025-03-20 07:34:10,476] [main] ---------------------------------------- [testng] [2025-03-20 07:34:10,476] [main] Total files: 2539 [testng] [2025-03-20 07:34:10,476] [main] Scan time: 238.355 s (93 ms/file) [testng] [2025-03-20 07:34:10,477] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 17 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-03-20 07:38:41,576] [pool-1-thread-1] Initializing /data/johannes/MFGTMP_081128200001_A02f239d1.C01: [testng] 07:38:41,577 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 07:38:41,577 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:38:41,578 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-03-20_07-38-41.log] [testng] 07:38:41,579 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4ecb14d3 - End of configuration. [testng] [2025-03-20 07:38:44,730] [pool-1-thread-12] Initializing /data/samples/sparse-plate/plate_E03f00d0.C01: [testng] 07:38:44,730 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 07:38:44,730 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:38:44,731 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-03-20_07-38-44.log] [testng] 07:38:44,731 |-INFO in ch.qos.logback.core.sift.SiftProcessor@482b258b - End of configuration. [testng] [2025-03-20 07:38:49,471] [pool-1-thread-11] Initializing /data/samples/plate-size/plate_B03f00d0.C01: [testng] 07:38:49,471 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 07:38:49,472 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:38:49,473 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-03-20_07-38-49.log] [testng] 07:38:49,473 |-INFO in ch.qos.logback.core.sift.SiftProcessor@55b069 - End of configuration. [testng] [2025-03-20 07:38:53,751] [pool-1-thread-10] Initializing /data/omar/FB03f00o2.C01: [testng] 07:38:53,751 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 07:38:53,751 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:38:53,752 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-03-20_07-38-53.log] [testng] 07:38:53,752 |-INFO in ch.qos.logback.core.sift.SiftProcessor@112eb0d5 - End of configuration. [testng] [2025-03-20 07:38:56,692] [pool-1-thread-9] Initializing /data/johannes/MFGTMP_081222130005_E07f00d0.C01: [testng] 07:38:56,692 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 07:38:56,692 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:38:56,693 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-03-20_07-38-56.log] [testng] 07:38:56,693 |-INFO in ch.qos.logback.core.sift.SiftProcessor@c3959aa - End of configuration. [testng] [2025-03-20 07:38:59,347] [pool-1-thread-8] Initializing /data/omar/FB03f00d1.C01: [testng] 07:38:59,347 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 07:38:59,347 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:38:59,348 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-03-20_07-38-59.log] [testng] 07:38:59,348 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6fefec7f - End of configuration. [testng] [2025-03-20 07:39:01,827] [pool-1-thread-7] Initializing /data/lee/icd002235_090127090001_a01f00d1.c01: [testng] 07:39:01,827 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 07:39:01,827 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:39:01,827 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-03-20_07-39-01.log] [testng] 07:39:01,828 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6225de9 - End of configuration. [testng] [2025-03-20 07:39:04,087] [pool-1-thread-6] Initializing /data/samples/different-field-count/plate_B03f00d0.C01: [testng] 07:39:04,087 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 07:39:04,087 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:39:04,088 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-03-20_07-39-04.log] [testng] 07:39:04,088 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1e7129de - End of configuration. [testng] [2025-03-20 07:39:06,254] [pool-1-thread-5] Initializing /data/qa-21720/AS_09125_050117190001_A14f00d0.DIB: [testng] 07:39:06,254 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 07:39:06,254 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:39:06,255 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-03-20_07-39-06.log] [testng] 07:39:06,255 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1ab8f22a - End of configuration. [testng] [2025-03-20 07:39:08,403] [pool-1-thread-4] Initializing /data/lee/AS_09125_050116030001_D03f00d0.DIB: [testng] 07:39:08,403 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 07:39:08,404 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:39:08,404 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-03-20_07-39-08.log] [testng] 07:39:08,404 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3feee890 - End of configuration. [testng] [2025-03-20 07:39:10,609] [pool-1-thread-3] Initializing /data/public/BBBC001/AS_09125_050118150001_A03f00d0.DIB: [testng] 07:39:10,609 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 07:39:10,609 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:39:10,610 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-03-20_07-39-10.log] [testng] 07:39:10,610 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6539ced4 - End of configuration. [testng] [2025-03-20 07:39:14,300] [pool-1-thread-2] Initializing /data/omar/FB03f00o1.C01: [testng] 07:39:14,300 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 07:39:14,300 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:39:14,301 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-03-20_07-39-14.log] [testng] 07:39:14,301 |-INFO in ch.qos.logback.core.sift.SiftProcessor@23bdc043 - End of configuration. [testng] [2025-03-20 07:39:52,718] [pool-1-thread-4] Initializing /data/harri/MFGTMP-PC_111018140003/MFGTMP-PC_111018140003_E04f00d0.C01: [testng] [2025-03-20 07:40:16,064] [pool-1-thread-9] Initializing /data/omar/FB03f03o2.DIB: [testng] [2025-03-20 07:40:19,431] [pool-1-thread-7] Initializing /data/omar/FB03f00d0.C01: [testng] [2025-03-20 07:40:23,165] [pool-1-thread-8] Initializing /data/qa-7352/test/MFGTMP-PC_130509120002_B02f00o1.C01: [testng] [2025-03-20 07:40:26,571] [pool-1-thread-10] Initializing /data/qa-7352/test/MFGTMP-PC_130509120002_B02f00d0.C01: [testng] 10:12:06,584 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 10:12:06,585 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:12:06,586 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-03-20_10-12-06.log] [testng] 10:12:06,586 |-INFO in ch.qos.logback.core.sift.SiftProcessor@660cd4f6 - End of configuration. [testng] 10:55:07,778 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 10:55:07,778 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:55:07,779 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-03-20_10-55-07.log] [testng] 10:55:07,779 |-INFO in ch.qos.logback.core.sift.SiftProcessor@47d8ec6 - End of configuration. [testng] 11:00:46,317 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 11:00:46,317 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:00:46,318 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-03-20_11-00-46.log] [testng] 11:00:46,319 |-INFO in ch.qos.logback.core.sift.SiftProcessor@315f09ef - End of configuration. [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 901, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 210 minutes 37 seconds Finished: SUCCESS