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Started by upstream project "BIOFORMATS-test-repo" build number 251 originally caused by: Started by upstream project "Trigger" build number 275 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@5 [BIOFORMATS-test-folder@5] $ /bin/bash -xe /tmp/jenkins15908638660340425645.sh + '[' jpeg2000 = slidebook ']' ++ date +%u + '[' 7 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_39636_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] 05:58:33,572 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 05:58:33,573 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - No custom configurators were discovered as a service. [testng] 05:58:33,573 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 05:58:33,574 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 05:58:33,575 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 05:58:33,575 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 05:58:33,575 |-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] 05:58:33,575 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 05:58:33,576 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 05:58:33,576 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 05:58:33,577 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 05:58:33,577 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 05:58:33,743 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 05:58:33,743 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 05:58:33,765 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 05:58:33,765 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 05:58:33,771 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 05:58:33,771 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 05:58:33,771 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 05:58:33,772 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 05:58:33,772 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2e3967ea - End of configuration. [testng] 05:58:33,772 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@2e6a8155 - Registering current configuration as safe fallback point [testng] 05:58:33,773 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 197 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-11-10 05:58:33,781] [main] java.version = 17.0.2 [testng] 05:58:33,784 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 05:58:33,784 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:58:33,824 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-10_05-58-33.log] [testng] 05:58:33,826 |-INFO in ch.qos.logback.core.sift.SiftProcessor@798162bc - End of configuration. [testng] [2024-11-10 05:58:33,828] [main] testng.directory = /data [testng] [2024-11-10 05:58:33,828] [main] testng.configDirectory = /config [testng] [2024-11-10 05:58:33,837] [main] testng.multiplier = 1.0 [testng] [2024-11-10 05:58:33,837] [main] testng.in-memory = false [testng] [2024-11-10 05:58:33,838] [main] testng.allow-missing = false [testng] [2024-11-10 05:58:33,838] [main] user.language = en [testng] [2024-11-10 05:58:33,838] [main] user.country = ${user.country} [testng] [2024-11-10 05:58:33,838] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-11-10 05:59:09,340] [main] ---------------------------------------- [testng] [2024-11-10 05:59:09,340] [main] Total files: 31 [testng] [2024-11-10 05:59:09,340] [main] Scan time: 35.502 s (1145 ms/file) [testng] [2024-11-10 05:59:09,340] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 30 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-11-10 05:59:48,709] [pool-1-thread-1] Initializing /data/mike/LCM-4-3-color-cleaned-LOCI.tiff: [testng] 05:59:48,710 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 05:59:48,710 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:59:48,711 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-11-10_05-59-48.log] [testng] 05:59:48,711 |-INFO in ch.qos.logback.core.sift.SiftProcessor@132d009a - End of configuration. [testng] [2024-11-10 05:59:51,285] [pool-1-thread-12] Initializing /data/misc/clown-rgb.jp2: [testng] 05:59:51,285 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 05:59:51,286 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:59:51,286 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-11-10_05-59-51.log] [testng] 05:59:51,287 |-INFO in ch.qos.logback.core.sift.SiftProcessor@12aab3fb - End of configuration. [testng] [2024-11-10 05:59:52,310] [pool-1-thread-11] Initializing /data/venu/Multichannel 3.jp2: [testng] 05:59:52,310 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 05:59:52,310 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:59:52,311 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-11-10_05-59-52.log] [testng] 05:59:52,311 |-INFO in ch.qos.logback.core.sift.SiftProcessor@667aa445 - End of configuration. [testng] [2024-11-10 05:59:53,478] [pool-1-thread-10] Initializing /data/mario/b0bCDME-0007_wB05_s1_z1_t1_cGFP_u001.jp2: [testng] 05:59:53,478 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 05:59:53,479 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:59:53,479 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-11-10_05-59-53.log] [testng] 05:59:53,479 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6364ee6 - End of configuration. [testng] [2024-11-10 05:59:54,458] [pool-1-thread-9] Initializing /data/vikram/Captured 3.jp2: [testng] 05:59:54,458 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 05:59:54,458 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:59:54,459 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-11-10_05-59-54.log] [testng] 05:59:54,459 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6732033b - End of configuration. [testng] [2024-11-10 05:59:55,470] [pool-1-thread-8] Initializing /data/mike/LCM4-1-cr10-cleaned.jp2: [testng] 05:59:55,471 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 05:59:55,471 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:59:55,471 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-11-10_05-59-55.log] [testng] 05:59:55,472 |-INFO in ch.qos.logback.core.sift.SiftProcessor@44a7d508 - End of configuration. [testng] [2024-11-10 05:59:56,471] [pool-1-thread-7] Initializing /data/david/cy5-tph.jp2: [testng] 05:59:56,471 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 05:59:56,471 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:59:56,472 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-11-10_05-59-56.log] [testng] 05:59:56,472 |-INFO in ch.qos.logback.core.sift.SiftProcessor@54b6a6a0 - End of configuration. [testng] [2024-11-10 05:59:57,739] [pool-1-thread-6] Initializing /data/big-images/2kx2k.jpf: [testng] 05:59:57,739 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 05:59:57,739 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:59:57,740 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-11-10_05-59-57.log] [testng] 05:59:57,741 |-INFO in ch.qos.logback.core.sift.SiftProcessor@324eee32 - End of configuration. [testng] [2024-11-10 05:59:59,222] [pool-1-thread-5] Initializing /data/angel/052_L050071_56_x2hv.jp2: [testng] 05:59:59,223 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 05:59:59,223 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:59:59,224 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-11-10_05-59-59.log] [testng] 05:59:59,224 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2ed63b38 - End of configuration. [testng] [2024-11-10 06:00:00,876] [pool-1-thread-4] Initializing /data/mike/LCM-4-3-color-cleaned.tiff: [testng] 06:00:00,877 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 06:00:00,877 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:00:00,878 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-11-10_06-00-00.log] [testng] 06:00:00,878 |-INFO in ch.qos.logback.core.sift.SiftProcessor@140cedc1 - End of configuration. [testng] [2024-11-10 06:00:04,048] [pool-1-thread-3] Initializing /data/angel/002_L050071_32_01_09_x2.jp2: [testng] 06:00:04,049 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 06:00:04,049 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:00:04,050 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-11-10_06-00-04.log] [testng] 06:00:04,050 |-INFO in ch.qos.logback.core.sift.SiftProcessor@455827b1 - End of configuration. [testng] [2024-11-10 06:00:05,467] [pool-1-thread-2] Initializing /data/mike/LCM-4-3-color-cleaned.jp2: [testng] 06:00:05,468 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 06:00:05,468 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:00:05,469 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-11-10_06-00-05.log] [testng] 06:00:05,469 |-INFO in ch.qos.logback.core.sift.SiftProcessor@31cee426 - End of configuration. [testng] [2024-11-10 06:00:14,920] [pool-1-thread-12] Initializing /data/vikram/Captured 2.jp2: [testng] [2024-11-10 06:00:16,481] [pool-1-thread-9] Initializing /data/david/multichannel-3d-non-MBF-trial-2.jpx: [testng] [2024-11-10 06:00:19,974] [pool-1-thread-10] Initializing /data/aryeh/flour 12.jp2: [testng] [2024-11-10 06:00:21,582] [pool-1-thread-8] Initializing /data/david/multichannel-2d test.jp2: [testng] [2024-11-10 06:00:24,557] [pool-1-thread-6] Initializing /data/big-images/8kx8k.jpf: [testng] [2024-11-10 06:00:25,743] [pool-1-thread-4] Initializing /data/kraig/head.jp2: [testng] [2024-11-10 06:00:27,228] [pool-1-thread-1] Initializing /data/frans/flower.jp2: [testng] [2024-11-10 06:00:29,559] [pool-1-thread-11] Initializing /data/vikram/Captured 1.jp2: [testng] [2024-11-10 06:00:30,901] [pool-1-thread-3] Initializing /data/big-images/4kx4k.jpf: [testng] [2024-11-10 06:00:32,125] [pool-1-thread-5] Initializing /data/venu/Multichannel 3a.jpg: [testng] [2024-11-10 06:00:32,857] [pool-1-thread-12] Initializing /data/david/C1R1_FOS.jp2: [testng] [2024-11-10 06:00:33,933] [pool-1-thread-2] Initializing /data/david/000000_000001.jpx: [testng] [2024-11-10 06:00:37,927] [pool-1-thread-10] Initializing /data/david/multichannel-3d-MBF-type.jpx: [testng] [2024-11-10 06:00:39,413] [pool-1-thread-5] Initializing /data/vikram/Captured 4.jp2: [testng] [2024-11-10 06:00:41,513] [pool-1-thread-4] Initializing /data/misc/clown-rgb.jbig: [testng] [2024-11-10 06:00:44,185] [pool-1-thread-11] Initializing /data/vikram/Captured 5.jp2: [testng] [2024-11-10 06:00:51,690] [pool-1-thread-5] Initializing /data/david/multichannel-2d test-non MBF-type.jp2: [testng] [2024-11-10 06:00:52,913] [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: 8 minutes 23 seconds Finished: SUCCESS