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Started by upstream project "BIOFORMATS-test-repo" build number 1 originally caused by: Started by upstream project "Trigger" build number 1 originally caused by: Started by user devspace Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@10 [BIOFORMATS-test-folder@10] $ /bin/bash -xe /tmp/jenkins7196749684742268322.sh + '[' gatan-dm2 = slidebook ']' ++ date +%u + '[' 4 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_69_merge_ci -v /uod/idr/repos/curated/gatan-dm2:/data -v /uod/idr-scratch/devspace/curated/gatan-dm2:/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warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] warning: [options] source value 8 is obsolete and will be removed in a future release [javac] warning: [options] target value 8 is obsolete and will be removed in a future release [javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options.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] 16:29:08,927 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 16:29:08,928 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - No custom configurators were discovered as a service. [testng] 16:29:08,928 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 16:29:08,929 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 16:29:08,930 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 16:29:08,930 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 16:29:08,930 |-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] 16:29:08,930 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 16:29:08,931 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 16:29:08,931 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 16:29:08,932 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 16:29:08,932 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 16:29:09,101 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 16:29:09,101 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 16:29:09,130 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 16:29:09,130 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 16:29:09,137 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 16:29:09,137 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 16:29:09,137 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 16:29:09,138 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 16:29:09,138 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@d9345cd - End of configuration. [testng] 16:29:09,138 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@48aca48b - Registering current configuration as safe fallback point [testng] 16:29:09,139 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 208 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-03-14 16:29:09,149] [main] java.version = 21 [testng] 16:29:09,152 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 16:29:09,152 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:29:09,198 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-03-14_16-29-09.log] [testng] 16:29:09,200 |-INFO in ch.qos.logback.core.sift.SiftProcessor@71687585 - End of configuration. [testng] [2024-03-14 16:29:09,202] [main] testng.directory = /data [testng] [2024-03-14 16:29:09,202] [main] testng.configDirectory = /config [testng] [2024-03-14 16:29:09,211] [main] testng.multiplier = 1.0 [testng] [2024-03-14 16:29:09,211] [main] testng.in-memory = false [testng] [2024-03-14 16:29:09,212] [main] testng.allow-missing = false [testng] [2024-03-14 16:29:09,212] [main] user.language = en [testng] [2024-03-14 16:29:09,212] [main] user.country = ${user.country} [testng] [2024-03-14 16:29:09,212] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-03-14 16:29:11,306] [main] ---------------------------------------- [testng] [2024-03-14 16:29:11,306] [main] Total files: 25 [testng] [2024-03-14 16:29:11,306] [main] Scan time: 2.094 s (83 ms/file) [testng] [2024-03-14 16:29:11,307] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 18 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-03-14 16:29:13,442] [pool-1-thread-1] Initializing /data/pang/screen capture of metadata/tem_dm_keywords_info.png: [testng] 16:29:13,443 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 16:29:13,443 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:29:13,444 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-03-14_16-29-13.log] [testng] 16:29:13,445 |-INFO in ch.qos.logback.core.sift.SiftProcessor@60470ac0 - End of configuration. [testng] [2024-03-14 16:29:13,460] [pool-1-thread-12] Initializing /data/imagic/not read correctly/Abeta Moon_preview.png: [testng] 16:29:13,460 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 16:29:13,460 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:29:13,461 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-03-14_16-29-13.log] [testng] 16:29:13,462 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4dda4100 - End of configuration. [testng] [2024-03-14 16:29:13,469] [pool-1-thread-11] Initializing /data/pang/screen capture of metadata/tem_dm_tags_info1.png: [testng] 16:29:13,470 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 16:29:13,470 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:29:13,471 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-03-14_16-29-13.log] [testng] 16:29:13,471 |-INFO in ch.qos.logback.core.sift.SiftProcessor@22254172 - End of configuration. [testng] [2024-03-14 16:29:13,478] [pool-1-thread-10] Initializing /data/pang/unproc-auto: [testng] 16:29:13,478 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 16:29:13,478 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:29:13,479 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-03-14_16-29-13.log] [testng] 16:29:13,480 |-INFO in ch.qos.logback.core.sift.SiftProcessor@b128357 - End of configuration. [testng] [2024-03-14 16:29:13,518] [pool-1-thread-9] Initializing /data/pang/DLMeD2E1_010500x03.dm2: [testng] 16:29:13,518 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 16:29:13,518 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:29:13,519 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-03-14_16-29-13.log] [testng] 16:29:13,520 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2d47cb1a - End of configuration. [testng] [2024-03-14 16:29:13,553] [pool-1-thread-8] Initializing /data/imagic/TEM 10118.dm2: [testng] 16:29:13,553 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 16:29:13,554 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:29:13,554 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-03-14_16-29-13.log] [testng] 16:29:13,555 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2d784dd - End of configuration. [testng] [2024-03-14 16:29:13,589] [pool-1-thread-7] Initializing /data/pang/screen capture of metadata/tem_dm_tags_info2.png: [testng] 16:29:13,589 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 16:29:13,589 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:29:13,591 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-03-14_16-29-13.log] [testng] 16:29:13,591 |-INFO in ch.qos.logback.core.sift.SiftProcessor@780f351c - End of configuration. [testng] [2024-03-14 16:29:13,597] [pool-1-thread-6] Initializing /data/imagic/not read correctly/Zucchini_preview.png: [testng] 16:29:13,598 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 16:29:13,598 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:29:13,598 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-03-14_16-29-13.log] [testng] 16:29:13,599 |-INFO in ch.qos.logback.core.sift.SiftProcessor@431ec3e0 - End of configuration. [testng] [2024-03-14 16:29:13,606] [pool-1-thread-5] Initializing /data/imagic/1-1.dm2: [testng] 16:29:13,606 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 16:29:13,606 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:29:13,607 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-03-14_16-29-13.log] [testng] 16:29:13,607 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2594738e - End of configuration. [testng] [2024-03-14 16:29:13,639] [pool-1-thread-4] Initializing /data/imagic/13008.dm2: [testng] 16:29:13,640 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 16:29:13,640 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:29:13,640 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-03-14_16-29-13.log] [testng] 16:29:13,641 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21b6b058 - End of configuration. [testng] [2024-03-14 16:29:13,690] [pool-1-thread-3] Initializing /data/pang/grating025k.dm2: [testng] 16:29:13,691 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 16:29:13,691 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:29:13,692 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-03-14_16-29-13.log] [testng] 16:29:13,692 |-INFO in ch.qos.logback.core.sift.SiftProcessor@32bade10 - End of configuration. [testng] [2024-03-14 16:29:13,717] [pool-1-thread-2] Initializing /data/pang/screen capture of metadata/tem_dm_general_info.png: [testng] 16:29:13,718 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 16:29:13,718 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:29:13,719 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-03-14_16-29-13.log] [testng] 16:29:13,719 |-INFO in ch.qos.logback.core.sift.SiftProcessor@50b02226 - End of configuration. [testng] [2024-03-14 16:29:15,535] [pool-1-thread-1] Initializing /data/imagic/not read correctly/Abeta Moon.dm2: [testng] [2024-03-14 16:29:15,559] [pool-1-thread-6] Initializing /data/pang/signed: [testng] [2024-03-14 16:29:15,586] [pool-1-thread-2] Initializing /data/imagic/Histiocyte in Skin Dermis.dm2: [testng] [2024-03-14 16:29:15,621] [pool-1-thread-11] Initializing /data/pang/screen capture of metadata/tem_dm_microscope_info.png: [testng] [2024-03-14 16:29:15,629] [pool-1-thread-3] Initializing /data/pang/10500x-o4: [testng] [2024-03-14 16:29:15,663] [pool-1-thread-10] Initializing /data/imagic/not read correctly/Zucchini.dm2: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 954, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 12 seconds Finished: SUCCESS