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Started by upstream project "BIOFORMATS-test-repo" build number 236 originally caused by: Started by upstream project "Trigger" build number 261 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@8 [BIOFORMATS-test-folder@8] $ /bin/bash -xe /tmp/jenkins11110812678347399857.sh + '[' jpeg2000 = slidebook ']' ++ date +%u + '[' 7 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_37176_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] 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] 04:01:05,485 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 04:01:05,486 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - No custom configurators were discovered as a service. [testng] 04:01:05,486 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 04:01:05,487 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 04:01:05,487 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 04:01:05,487 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 04:01:05,488 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 0 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 04:01:05,488 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 04:01:05,488 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 04:01:05,488 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 04:01:05,489 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 04:01:05,489 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 04:01:05,639 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 04:01:05,639 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 04:01:05,659 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 04:01:05,659 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 04:01:05,665 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 04:01:05,665 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 04:01:05,665 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 04:01:05,665 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 04:01:05,665 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2e3967ea - End of configuration. [testng] 04:01:05,666 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@2e6a8155 - Registering current configuration as safe fallback point [testng] 04:01:05,666 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 178 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-10-27 04:01:05,674] [main] java.version = 17.0.2 [testng] 04:01:05,677 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 04:01:05,677 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:01:05,715 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-27_04-01-05.log] [testng] 04:01:05,716 |-INFO in ch.qos.logback.core.sift.SiftProcessor@798162bc - End of configuration. [testng] [2024-10-27 04:01:05,718] [main] testng.directory = /data [testng] [2024-10-27 04:01:05,718] [main] testng.configDirectory = /config [testng] [2024-10-27 04:01:05,726] [main] testng.multiplier = 1.0 [testng] [2024-10-27 04:01:05,727] [main] testng.in-memory = false [testng] [2024-10-27 04:01:05,727] [main] testng.allow-missing = false [testng] [2024-10-27 04:01:05,727] [main] user.language = en [testng] [2024-10-27 04:01:05,727] [main] user.country = ${user.country} [testng] [2024-10-27 04:01:05,727] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-10-27 04:01:20,695] [main] ---------------------------------------- [testng] [2024-10-27 04:01:20,695] [main] Total files: 31 [testng] [2024-10-27 04:01:20,695] [main] Scan time: 14.967 s (482 ms/file) [testng] [2024-10-27 04:01:20,695] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 30 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-10-27 04:01:38,640] [pool-1-thread-1] Initializing /data/mike/LCM-4-3-color-cleaned-LOCI.tiff: [testng] 04:01:38,641 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 04:01:38,641 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:01:38,642 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-27_04-01-38.log] [testng] 04:01:38,642 |-INFO in ch.qos.logback.core.sift.SiftProcessor@b74c2a5 - End of configuration. [testng] [2024-10-27 04:01:39,567] [pool-1-thread-12] Initializing /data/misc/clown-rgb.jp2: [testng] 04:01:39,567 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 04:01:39,567 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:01:39,568 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-10-27_04-01-39.log] [testng] 04:01:39,568 |-INFO in ch.qos.logback.core.sift.SiftProcessor@729a9c0e - End of configuration. [testng] [2024-10-27 04:01:39,972] [pool-1-thread-11] Initializing /data/venu/Multichannel 3.jp2: [testng] 04:01:39,973 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 04:01:39,973 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:01:39,973 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-10-27_04-01-39.log] [testng] 04:01:39,974 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6364ee6 - End of configuration. [testng] [2024-10-27 04:01:40,458] [pool-1-thread-10] Initializing /data/mario/b0bCDME-0007_wB05_s1_z1_t1_cGFP_u001.jp2: [testng] 04:01:40,459 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 04:01:40,459 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:01:40,460 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-27_04-01-40.log] [testng] 04:01:40,460 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2087252b - End of configuration. [testng] [2024-10-27 04:01:40,830] [pool-1-thread-9] Initializing /data/vikram/Captured 3.jp2: [testng] 04:01:40,830 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 04:01:40,830 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:01:40,831 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-27_04-01-40.log] [testng] 04:01:40,831 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5f50f2ae - End of configuration. [testng] [2024-10-27 04:01:41,215] [pool-1-thread-8] Initializing /data/mike/LCM4-1-cr10-cleaned.jp2: [testng] 04:01:41,215 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 04:01:41,215 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:01:41,216 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-27_04-01-41.log] [testng] 04:01:41,217 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2ed63b38 - End of configuration. [testng] [2024-10-27 04:01:41,598] [pool-1-thread-7] Initializing /data/david/cy5-tph.jp2: [testng] 04:01:41,598 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 04:01:41,598 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:01:41,598 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-27_04-01-41.log] [testng] 04:01:41,599 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2704605 - End of configuration. [testng] [2024-10-27 04:01:42,039] [pool-1-thread-6] Initializing /data/big-images/2kx2k.jpf: [testng] 04:01:42,040 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 04:01:42,040 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:01:42,041 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-27_04-01-42.log] [testng] 04:01:42,041 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4ade598c - End of configuration. [testng] [2024-10-27 04:01:42,423] [pool-1-thread-5] Initializing /data/angel/052_L050071_56_x2hv.jp2: [testng] 04:01:42,423 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 04:01:42,423 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:01:42,424 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-27_04-01-42.log] [testng] 04:01:42,424 |-INFO in ch.qos.logback.core.sift.SiftProcessor@55de1ef8 - End of configuration. [testng] [2024-10-27 04:01:42,833] [pool-1-thread-4] Initializing /data/mike/LCM-4-3-color-cleaned.tiff: [testng] 04:01:42,833 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 04:01:42,833 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:01:42,834 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-27_04-01-42.log] [testng] 04:01:42,835 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1a0155d7 - End of configuration. [testng] [2024-10-27 04:01:43,895] [pool-1-thread-3] Initializing /data/angel/002_L050071_32_01_09_x2.jp2: [testng] 04:01:43,895 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 04:01:43,895 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:01:43,896 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-27_04-01-43.log] [testng] 04:01:43,896 |-INFO in ch.qos.logback.core.sift.SiftProcessor@328431f9 - End of configuration. [testng] [2024-10-27 04:01:44,314] [pool-1-thread-2] Initializing /data/mike/LCM-4-3-color-cleaned.jp2: [testng] 04:01:44,314 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 04:01:44,314 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:01:44,315 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-27_04-01-44.log] [testng] 04:01:44,315 |-INFO in ch.qos.logback.core.sift.SiftProcessor@12e66065 - End of configuration. [testng] [2024-10-27 04:01:48,929] [pool-1-thread-12] Initializing /data/vikram/Captured 2.jp2: [testng] [2024-10-27 04:01:49,459] [pool-1-thread-9] Initializing /data/david/multichannel-3d-non-MBF-trial-2.jpx: [testng] [2024-10-27 04:01:51,598] [pool-1-thread-1] Initializing /data/aryeh/flour 12.jp2: [testng] [2024-10-27 04:01:52,130] [pool-1-thread-4] Initializing /data/david/multichannel-2d test.jp2: [testng] [2024-10-27 04:01:53,568] [pool-1-thread-10] Initializing /data/big-images/8kx8k.jpf: [testng] [2024-10-27 04:01:54,056] [pool-1-thread-8] Initializing /data/kraig/head.jp2: [testng] [2024-10-27 04:01:54,848] [pool-1-thread-12] Initializing /data/frans/flower.jp2: [testng] [2024-10-27 04:01:57,075] [pool-1-thread-1] Initializing /data/vikram/Captured 1.jp2: [testng] [2024-10-27 04:01:57,591] [pool-1-thread-6] Initializing /data/big-images/4kx4k.jpf: [testng] [2024-10-27 04:01:58,727] [pool-1-thread-8] Initializing /data/venu/Multichannel 3a.jpg: [testng] [2024-10-27 04:01:59,936] [pool-1-thread-11] Initializing /data/david/C1R1_FOS.jp2: [testng] [2024-10-27 04:02:01,092] [pool-1-thread-3] Initializing /data/david/000000_000001.jpx: [testng] [2024-10-27 04:02:01,860] [pool-1-thread-1] Initializing /data/david/multichannel-3d-MBF-type.jpx: [testng] [2024-10-27 04:02:02,695] [pool-1-thread-5] Initializing /data/vikram/Captured 4.jp2: [testng] [2024-10-27 04:02:03,521] [pool-1-thread-8] Initializing /data/misc/clown-rgb.jbig: [testng] [2024-10-27 04:02:05,559] [pool-1-thread-2] Initializing /data/vikram/Captured 5.jp2: [testng] [2024-10-27 04:02:08,217] [pool-1-thread-5] Initializing /data/david/multichannel-2d test-non MBF-type.jp2: [testng] [2024-10-27 04:02:10,703] [pool-1-thread-2] Initializing /data/misc/clown-rgb.jpc: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1590, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 7 minutes 1 second Finished: SUCCESS