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Started by upstream project "BIOFORMATS-test-repo" build number 269 originally caused by: Started by upstream project "Trigger" build number 292 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@2 [BIOFORMATS-test-folder@2] $ /bin/bash -xe /tmp/jenkins3878725987480466558.sh + '[' imaris = slidebook ']' ++ date +%u + '[' 3 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_42549_merge_ci -v /uod/idr/repos/curated/imaris:/data -v /uod/idr-scratch/merge-ci/curated/imaris:/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] 03:42:11,192 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 03:42:11,193 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - No custom configurators were discovered as a service. [testng] 03:42:11,193 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 03:42:11,194 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 03:42:11,194 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 03:42:11,195 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 03:42:11,195 |-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] 03:42:11,195 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 03:42:11,196 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 03:42:11,196 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 03:42:11,196 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 03:42:11,197 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 03:42:11,361 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 03:42:11,361 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 03:42:11,383 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 03:42:11,383 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 03:42:11,389 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 03:42:11,389 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 03:42:11,389 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 03:42:11,390 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 03:42:11,390 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2e3967ea - End of configuration. [testng] 03:42:11,391 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@2e6a8155 - Registering current configuration as safe fallback point [testng] 03:42:11,391 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 195 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-11-27 03:42:11,399] [main] java.version = 17.0.2 [testng] 03:42:11,403 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 03:42:11,403 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:42:11,448 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-27_03-42-11.log] [testng] 03:42:11,449 |-INFO in ch.qos.logback.core.sift.SiftProcessor@798162bc - End of configuration. [testng] [2024-11-27 03:42:11,451] [main] testng.directory = /data [testng] [2024-11-27 03:42:11,451] [main] testng.configDirectory = /config [testng] [2024-11-27 03:42:11,460] [main] testng.multiplier = 1.0 [testng] [2024-11-27 03:42:11,461] [main] testng.in-memory = false [testng] [2024-11-27 03:42:11,461] [main] testng.allow-missing = false [testng] [2024-11-27 03:42:11,461] [main] user.language = en [testng] [2024-11-27 03:42:11,461] [main] user.country = ${user.country} [testng] [2024-11-27 03:42:11,461] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-11-27 03:42:57,846] [main] ---------------------------------------- [testng] [2024-11-27 03:42:57,846] [main] Total files: 71 [testng] [2024-11-27 03:42:57,846] [main] Scan time: 46.385 s (653 ms/file) [testng] [2024-11-27 03:42:57,846] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 62 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-11-27 03:44:00,302] [pool-1-thread-1] Initializing /data/public/davemason/Convallaria_3C_1T_2x2grid_confocal.ims: [testng] 03:44:00,302 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 03:44:00,303 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:44:00,304 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-11-27_03-44-00.log] [testng] 03:44:00,304 |-INFO in ch.qos.logback.core.sift.SiftProcessor@145c22f - End of configuration. [testng] [2024-11-27 03:44:00,646] [pool-1-thread-12] Initializing /data/public/davemason/Convallaria_3C_1T_2x2grid_confocal_IMS3.ims: [testng] 03:44:00,646 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 03:44:00,647 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:44:00,648 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-11-27_03-44-00.log] [testng] 03:44:00,648 |-INFO in ch.qos.logback.core.sift.SiftProcessor@311c7f3e - End of configuration. [testng] [2024-11-27 03:44:01,040] [pool-1-thread-11] Initializing /data/public/eliana/retina_large.ims: [testng] 03:44:01,040 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 03:44:01,040 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:44:01,041 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-11-27_03-44-01.log] [testng] 03:44:01,041 |-INFO in ch.qos.logback.core.sift.SiftProcessor@262e4b95 - End of configuration. [testng] [2024-11-27 03:44:02,282] [pool-1-thread-10] Initializing /data/generated/10-31_E_t0005.ims: [testng] 03:44:02,282 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 03:44:02,282 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:44:02,283 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-11-27_03-44-02.log] [testng] 03:44:02,283 |-INFO in ch.qos.logback.core.sift.SiftProcessor@17da16bb - End of configuration. [testng] [2024-11-27 03:44:02,416] [pool-1-thread-9] Initializing /data/jake/p75Cherry M2 010-3~B.ims: [testng] 03:44:02,417 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 03:44:02,417 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:44:02,417 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-11-27_03-44-02.log] [testng] 03:44:02,418 |-INFO in ch.qos.logback.core.sift.SiftProcessor@68c1838a - End of configuration. [testng] [2024-11-27 03:44:02,786] [pool-1-thread-8] Initializing /data/public/davemason/Convallaria_3C_3T_2x2grid_confocal_IMS3.ims: [testng] 03:44:02,786 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 03:44:02,786 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:44:02,786 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-11-27_03-44-02.log] [testng] 03:44:02,787 |-INFO in ch.qos.logback.core.sift.SiftProcessor@633a77eb - End of configuration. [testng] [2024-11-27 03:44:03,168] [pool-1-thread-7] Initializing /data/niko/imaris-testfile_5x5x5.ims: [testng] 03:44:03,168 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 03:44:03,168 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:44:03,169 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-11-27_03-44-03.log] [testng] 03:44:03,169 |-INFO in ch.qos.logback.core.sift.SiftProcessor@614895 - End of configuration. [testng] [2024-11-27 03:44:03,510] [pool-1-thread-6] Initializing /data/generated/10-31_E_t0004.ims: [testng] 03:44:03,510 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 03:44:03,511 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:44:03,511 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-11-27_03-44-03.log] [testng] 03:44:03,511 |-INFO in ch.qos.logback.core.sift.SiftProcessor@17d29077 - End of configuration. [testng] [2024-11-27 03:44:03,648] [pool-1-thread-5] Initializing /data/qa-8019/wrong_num_dimensions.ims: [testng] 03:44:03,648 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 03:44:03,648 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:44:03,649 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-11-27_03-44-03.log] [testng] 03:44:03,649 |-INFO in ch.qos.logback.core.sift.SiftProcessor@162896b1 - End of configuration. [testng] [2024-11-27 03:44:04,017] [pool-1-thread-4] Initializing /data/gh-4193/24-5-9_RSV+AfumMscar+CFW_40x Stack_deconvolved.ims: [testng] 03:44:04,017 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 03:44:04,017 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:44:04,018 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-11-27_03-44-04.log] [testng] 03:44:04,018 |-INFO in ch.qos.logback.core.sift.SiftProcessor@fbf7c5f - End of configuration. [testng] [2024-11-27 03:44:05,837] [pool-1-thread-3] Initializing /data/generated/10-31_E_t0014.ims: [testng] 03:44:05,837 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 03:44:05,837 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:44:05,837 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-11-27_03-44-05.log] [testng] 03:44:05,838 |-INFO in ch.qos.logback.core.sift.SiftProcessor@553776c9 - End of configuration. [testng] [2024-11-27 03:44:05,981] [pool-1-thread-2] Initializing /data/public/davemason/Convallaria_3C_3T_2x2grid_confocal.ims: [testng] 03:44:05,981 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 03:44:05,981 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:44:05,982 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-11-27_03-44-05.log] [testng] 03:44:05,983 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7591dc13 - End of configuration. [testng] [2024-11-27 03:44:09,266] [pool-1-thread-10] Initializing /data/jason/imaris_5_5_demoimages/PyramidalCell.ims: [testng] [2024-11-27 03:44:09,576] [pool-1-thread-6] Initializing /data/jcb/fig 6B GFP-AP-2d.ims: [testng] [2024-11-27 03:44:10,602] [pool-1-thread-3] Initializing /data/jason/imaris_5_5_demoimages/PtK2Cell.ims: [testng] [2024-11-27 03:44:10,948] [pool-1-thread-7] Initializing /data/generated/10-31_E_t0002.ims: [testng] [2024-11-27 03:44:11,224] [pool-1-thread-5] Initializing /data/james/apoEcherry_IL10GFP_tfn647_1_R3D_D3D-Display Adjustment-Save-2011-7-5-1.ims: BUILD SUCCESSFUL Total time: 3 minutes 36 seconds Finished: SUCCESS