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Started by upstream project "BIOFORMATS-test-repo" build number 7 originally caused by: Started by upstream project "Trigger" build number 10 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@7 [BIOFORMATS-test-folder@7] $ /bin/bash -xe /tmp/jenkins1704126780090848799.sh + '[' jpeg2000 = slidebook ']' ++ date +%u + '[' 4 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_1039_merge_ci -v /uod/idr/repos/curated/jpeg2000:/data -v /uod/idr-scratch/merge-ci/curated/jpeg2000:/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warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] warning: [options] source value 8 is obsolete and will be removed in a future release [javac] warning: [options] target value 8 is obsolete and will be removed in a future release [javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options.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] 07:39:26,055 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 07:39:26,057 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - No custom configurators were discovered as a service. [testng] 07:39:26,057 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 07:39:26,058 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 07:39:26,059 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 07:39:26,060 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 07:39:26,060 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 2 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 07:39:26,060 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 07:39:26,061 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 07:39:26,062 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 07:39:26,063 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 07:39:26,063 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 07:39:26,284 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 07:39:26,284 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 07:39:26,324 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 07:39:26,324 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 07:39:26,334 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 07:39:26,335 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 07:39:26,335 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 07:39:26,336 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 07:39:26,336 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@d9345cd - End of configuration. [testng] 07:39:26,337 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@48aca48b - Registering current configuration as safe fallback point [testng] 07:39:26,337 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 276 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-03-21 07:39:26,351] [main] java.version = 21 [testng] 07:39:26,356 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 07:39:26,357 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:39:26,417 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-03-21_07-39-26.log] [testng] 07:39:26,418 |-INFO in ch.qos.logback.core.sift.SiftProcessor@71687585 - End of configuration. [testng] [2024-03-21 07:39:26,420] [main] testng.directory = /data [testng] [2024-03-21 07:39:26,420] [main] testng.configDirectory = /config [testng] [2024-03-21 07:39:26,429] [main] testng.multiplier = 1.0 [testng] [2024-03-21 07:39:26,430] [main] testng.in-memory = false [testng] [2024-03-21 07:39:26,430] [main] testng.allow-missing = false [testng] [2024-03-21 07:39:26,430] [main] user.language = en [testng] [2024-03-21 07:39:26,430] [main] user.country = ${user.country} [testng] [2024-03-21 07:39:26,430] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-03-21 07:39:31,205] [main] ---------------------------------------- [testng] [2024-03-21 07:39:31,205] [main] Total files: 31 [testng] [2024-03-21 07:39:31,205] [main] Scan time: 4.774 s (154 ms/file) [testng] [2024-03-21 07:39:31,205] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 30 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-03-21 07:39:35,929] [pool-1-thread-1] Initializing /data/david/000000_000001.jpx: [testng] 07:39:35,930 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 07:39:35,930 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:39:35,932 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-03-21_07-39-35.log] [testng] 07:39:35,933 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7d5e1aa0 - End of configuration. [testng] [2024-03-21 07:39:36,008] [pool-1-thread-12] Initializing /data/vikram/Captured 2.jp2: [testng] 07:39:36,008 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 07:39:36,009 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:39:36,010 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-03-21_07-39-36.log] [testng] 07:39:36,010 |-INFO in ch.qos.logback.core.sift.SiftProcessor@46f4e714 - End of configuration. [testng] [2024-03-21 07:39:36,073] [pool-1-thread-11] Initializing /data/mike/LCM-4-3-color-cleaned-LOCI.tiff: [testng] 07:39:36,073 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 07:39:36,074 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:39:36,075 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-03-21_07-39-36.log] [testng] 07:39:36,075 |-INFO in ch.qos.logback.core.sift.SiftProcessor@18b76c7e - End of configuration. [testng] [2024-03-21 07:39:36,147] [pool-1-thread-10] Initializing /data/david/multichannel-2d test.jp2: [testng] 07:39:36,147 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 07:39:36,147 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:39:36,148 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-03-21_07-39-36.log] [testng] 07:39:36,148 |-INFO in ch.qos.logback.core.sift.SiftProcessor@109f3fbb - End of configuration. [testng] [2024-03-21 07:39:36,196] [pool-1-thread-9] Initializing /data/mike/LCM4-1-cr10-cleaned.jp2: [testng] 07:39:36,197 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 07:39:36,197 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:39:36,198 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-03-21_07-39-36.log] [testng] 07:39:36,198 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1bf1090b - End of configuration. [testng] [2024-03-21 07:39:36,256] [pool-1-thread-8] Initializing /data/kraig/head.jp2: [testng] 07:39:36,256 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 07:39:36,256 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:39:36,257 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-03-21_07-39-36.log] [testng] 07:39:36,257 |-INFO in ch.qos.logback.core.sift.SiftProcessor@40799e61 - End of configuration. [testng] [2024-03-21 07:39:36,344] [pool-1-thread-7] Initializing /data/venu/Multichannel 3.jp2: [testng] 07:39:36,345 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 07:39:36,345 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:39:36,346 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-03-21_07-39-36.log] [testng] 07:39:36,347 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3ea83688 - End of configuration. [testng] [2024-03-21 07:39:36,504] [pool-1-thread-6] Initializing /data/vikram/Captured 3.jp2: [testng] 07:39:36,504 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 07:39:36,505 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:39:36,505 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-03-21_07-39-36.log] [testng] 07:39:36,506 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2e112d15 - End of configuration. [testng] [2024-03-21 07:39:36,572] [pool-1-thread-5] Initializing /data/david/multichannel-3d-MBF-type.jpx: [testng] 07:39:36,573 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 07:39:36,573 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:39:36,574 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-03-21_07-39-36.log] [testng] 07:39:36,574 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7d5bce3 - End of configuration. [testng] [2024-03-21 07:39:37,066] [pool-1-thread-4] Initializing /data/aryeh/flour 12.jp2: [testng] 07:39:37,066 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 07:39:37,066 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:39:37,067 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-03-21_07-39-37.log] [testng] 07:39:37,068 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2d3eb071 - End of configuration. [testng] [2024-03-21 07:39:37,132] [pool-1-thread-3] Initializing /data/david/multichannel-2d test-non MBF-type.jp2: [testng] 07:39:37,132 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 07:39:37,132 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:39:37,133 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-03-21_07-39-37.log] [testng] 07:39:37,134 |-INFO in ch.qos.logback.core.sift.SiftProcessor@605135c4 - End of configuration. [testng] [2024-03-21 07:39:37,209] [pool-1-thread-2] Initializing /data/big-images/4kx4k.jpf: [testng] 07:39:37,209 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 07:39:37,209 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:39:37,210 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-03-21_07-39-37.log] [testng] 07:39:37,210 |-INFO in ch.qos.logback.core.sift.SiftProcessor@25ee6e03 - End of configuration. [testng] [2024-03-21 07:39:40,807] [pool-1-thread-12] Initializing /data/big-images/2kx2k.jpf: [testng] [2024-03-21 07:39:41,077] [pool-1-thread-6] Initializing /data/frans/flower.jp2: [testng] [2024-03-21 07:39:41,362] [pool-1-thread-11] Initializing /data/misc/clown-rgb.jp2: [testng] [2024-03-21 07:39:41,431] [pool-1-thread-4] Initializing /data/david/multichannel-3d-non-MBF-trial-2.jpx: [testng] [2024-03-21 07:39:41,642] [pool-1-thread-8] Initializing /data/misc/clown-rgb.jbig: [testng] [2024-03-21 07:39:43,727] [pool-1-thread-9] Initializing /data/mario/b0bCDME-0007_wB05_s1_z1_t1_cGFP_u001.jp2: [testng] [2024-03-21 07:39:43,899] [pool-1-thread-11] Initializing /data/vikram/Captured 1.jp2: [testng] [2024-03-21 07:39:44,038] [pool-1-thread-8] Initializing /data/big-images/8kx8k.jpf: [testng] [2024-03-21 07:39:45,040] [pool-1-thread-11] Initializing /data/misc/clown-rgb.jpc: [testng] [2024-03-21 07:39:45,268] [pool-1-thread-1] Initializing /data/venu/Multichannel 3a.jpg: [testng] [2024-03-21 07:39:46,109] [pool-1-thread-11] Initializing /data/mike/LCM-4-3-color-cleaned.tiff: [testng] [2024-03-21 07:39:46,633] [pool-1-thread-1] Initializing /data/vikram/Captured 5.jp2: [testng] [2024-03-21 07:39:48,136] [pool-1-thread-11] Initializing /data/david/cy5-tph.jp2: [testng] [2024-03-21 07:39:48,248] [pool-1-thread-1] Initializing /data/mike/LCM-4-3-color-cleaned.jp2: [testng] [2024-03-21 07:39:50,055] [pool-1-thread-9] Initializing /data/angel/052_L050071_56_x2hv.jp2: [testng] [2024-03-21 07:39:50,775] [pool-1-thread-7] Initializing /data/vikram/Captured 4.jp2: [testng] [2024-03-21 07:39:52,354] [pool-1-thread-12] Initializing /data/david/C1R1_FOS.jp2: [testng] [2024-03-21 07:39:52,421] [pool-1-thread-7] Initializing /data/angel/002_L050071_32_01_09_x2.jp2: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1590, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 6 minutes 17 seconds Finished: SUCCESS