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Started by upstream project "BIOFORMATS-test-repo" build number 366 originally caused by: Started by upstream project "Trigger" build number 392 originally caused by: Started by timer 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/jenkins16783043781969855740.sh + '[' analyze = slidebook ']' ++ date +%u + '[' 4 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_58406_merge_ci -v /uod/idr/repos/curated/analyze:/data -v /uod/idr-scratch/merge-ci/curated/analyze:/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warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] warning: [options] source value 8 is obsolete and will be removed in a future release [javac] warning: [options] target value 8 is obsolete and will be removed in a future release [javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options.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] 03:40:34,951 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15 [testng] 03:40:34,952 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - No custom configurators were discovered as a service. [testng] 03:40:34,952 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 03:40:34,953 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 03:40:34,954 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 03:40:34,954 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 03:40:34,954 |-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] 03:40:34,954 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 03:40:34,955 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 03:40:34,955 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 03:40:34,956 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 03:40:34,956 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 03:40:35,107 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 03:40:35,107 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 03:40:35,131 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 03:40:35,131 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 03:40:35,137 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 03:40:35,137 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 03:40:35,137 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 03:40:35,137 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 03:40:35,137 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@4310d43 - End of configuration. [testng] 03:40:35,138 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@1b11171f - Registering current configuration as safe fallback point [testng] 03:40:35,138 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 183 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-03-06 03:40:35,147] [main] java.version = 21 [testng] 03:40:35,150 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 03:40:35,150 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:40:35,190 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-03-06_03-40-35.log] [testng] 03:40:35,192 |-INFO in ch.qos.logback.core.sift.SiftProcessor@69504ae9 - End of configuration. [testng] [2025-03-06 03:40:35,193] [main] testng.directory = /data [testng] [2025-03-06 03:40:35,194] [main] testng.configDirectory = /config [testng] [2025-03-06 03:40:35,202] [main] testng.multiplier = 1.0 [testng] [2025-03-06 03:40:35,203] [main] testng.in-memory = false [testng] [2025-03-06 03:40:35,203] [main] testng.allow-missing = false [testng] [2025-03-06 03:40:35,203] [main] user.language = en [testng] [2025-03-06 03:40:35,203] [main] user.country = ${user.country} [testng] [2025-03-06 03:40:35,203] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2025-03-06 03:40:54,896] [main] ---------------------------------------- [testng] [2025-03-06 03:40:54,896] [main] Total files: 21 [testng] [2025-03-06 03:40:54,896] [main] Scan time: 19.693 s (937 ms/file) [testng] [2025-03-06 03:40:54,897] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 21 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-03-06 03:41:18,450] [pool-1-thread-1] Initializing /data/frans/Test Files for Frans/PLA-zm2-16mm_1002_MF_V1.hdr: [testng] 03:41:18,451 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 03:41:18,451 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:41:18,452 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-03-06_03-41-18.log] [testng] 03:41:18,452 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7fd62aa9 - End of configuration. [testng] [2025-03-06 03:41:19,589] [pool-1-thread-12] Initializing /data/frans/brodmann.hdr: [testng] 03:41:19,589 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 03:41:19,589 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:41:19,590 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-03-06_03-41-19.log] [testng] 03:41:19,591 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6541a734 - End of configuration. [testng] [2025-03-06 03:41:20,790] [pool-1-thread-11] Initializing /data/frans/Test Files for Frans/06-101-mask-40pc2dil.hdr: [testng] 03:41:20,790 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 03:41:20,790 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:41:20,791 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-03-06_03-41-20.log] [testng] 03:41:20,791 |-INFO in ch.qos.logback.core.sift.SiftProcessor@41a89e1c - End of configuration. [testng] [2025-03-06 03:41:21,866] [pool-1-thread-10] Initializing /data/frans/CT_KNEE.hdr: [testng] 03:41:21,866 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 03:41:21,866 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:41:21,867 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-03-06_03-41-21.log] [testng] 03:41:21,867 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2c6ce2c6 - End of configuration. [testng] [2025-03-06 03:41:23,059] [pool-1-thread-9] Initializing /data/frans/MR_SEGBRAIN.hdr: [testng] 03:41:23,059 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 03:41:23,059 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:41:23,060 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-03-06_03-41-23.log] [testng] 03:41:23,060 |-INFO in ch.qos.logback.core.sift.SiftProcessor@29172b00 - End of configuration. [testng] [2025-03-06 03:41:24,339] [pool-1-thread-8] Initializing /data/frans/betmask.hdr: [testng] 03:41:24,339 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 03:41:24,339 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:41:24,340 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-03-06_03-41-24.log] [testng] 03:41:24,340 |-INFO in ch.qos.logback.core.sift.SiftProcessor@140b4a28 - End of configuration. [testng] [2025-03-06 03:41:25,616] [pool-1-thread-7] Initializing /data/frans/ch2.hdr: [testng] 03:41:25,616 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 03:41:25,616 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:41:25,618 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-03-06_03-41-25.log] [testng] 03:41:25,618 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6fe97e56 - End of configuration. [testng] [2025-03-06 03:41:26,769] [pool-1-thread-6] Initializing /data/frans/CT_HAND.hdr: [testng] 03:41:26,770 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 03:41:26,770 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:41:26,770 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-03-06_03-41-26.log] [testng] 03:41:26,771 |-INFO in ch.qos.logback.core.sift.SiftProcessor@938d468 - End of configuration. [testng] [2025-03-06 03:41:27,847] [pool-1-thread-5] Initializing /data/frans/CT_CRANI.hdr: [testng] 03:41:27,847 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 03:41:27,847 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:41:27,848 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-03-06_03-41-27.log] [testng] 03:41:27,848 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2bf3831c - End of configuration. [testng] [2025-03-06 03:41:28,859] [pool-1-thread-4] Initializing /data/frans/ch2bet.hdr: [testng] 03:41:28,859 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 03:41:28,859 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:41:28,860 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-03-06_03-41-28.log] [testng] 03:41:28,860 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4088058 - End of configuration. [testng] [2025-03-06 03:41:30,113] [pool-1-thread-3] Initializing /data/frans/CT_FOOT.hdr: [testng] 03:41:30,113 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 03:41:30,114 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:41:30,114 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-03-06_03-41-30.log] [testng] 03:41:30,115 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1d6d03fb - End of configuration. [testng] [2025-03-06 03:41:31,257] [pool-1-thread-2] Initializing /data/frans/MR_CHEST.hdr: [testng] 03:41:31,257 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 03:41:31,257 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:41:31,258 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-03-06_03-41-31.log] [testng] 03:41:31,258 |-INFO in ch.qos.logback.core.sift.SiftProcessor@693c0f13 - End of configuration. [testng] [2025-03-06 03:41:43,913] [pool-1-thread-8] Initializing /data/frans/m000-MR_CHEST.gif: [testng] [2025-03-06 03:41:44,114] [pool-1-thread-12] Initializing /data/frans/Test Files for Frans/F005_1002_MF_SCAN1_stat_brain_fdg_JJ_Volume_Corrected.hdr: [testng] [2025-03-06 03:41:45,267] [pool-1-thread-4] Initializing /data/frans/Test Files for Frans/200-PLA_sansBD_spmT_0005.hdr: [testng] [2025-03-06 03:41:46,328] [pool-1-thread-9] Initializing /data/frans/CT_CHEST.hdr: [testng] [2025-03-06 03:41:47,525] [pool-1-thread-2] Initializing /data/frans/CT_APERT.hdr: [testng] [2025-03-06 03:41:48,712] [pool-1-thread-5] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1.img.hdr: [testng] [2025-03-06 03:41:49,893] [pool-1-thread-10] Initializing /data/frans/Test Files for Frans/1002-sag-transform-box-est_flip-ord.hdr: [testng] [2025-03-06 03:41:51,251] [pool-1-thread-6] Initializing /data/frans/aal.hdr: [testng] [2025-03-06 03:41:52,476] [pool-1-thread-3] Initializing /data/frans/CT_WHOLE.hdr: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1113, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 1 minute 32 seconds Finished: SUCCESS