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Started by upstream project "BIOFORMATS-test-repo" build number 97 originally caused by: Started by upstream project "Trigger" build number 108 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/jenkins975037451200872938.sh + '[' jpeg2000 = slidebook ']' ++ date +%u + '[' 3 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_15053_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] 02:45:42,358 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 02:45:42,359 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service. [testng] 02:45:42,359 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:45:42,360 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:45:42,360 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 02:45:42,361 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 02:45:42,361 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 02:45:42,361 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:45:42,361 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:45:42,362 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 02:45:42,362 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 02:45:42,362 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 02:45:42,518 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:45:42,518 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:45:42,540 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:45:42,540 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:45:42,546 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:45:42,546 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:45:42,546 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:45:42,546 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:45:42,546 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration. [testng] 02:45:42,547 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point [testng] 02:45:42,547 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 186 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-06-19 02:45:42,556] [main] java.version = 17.0.2 [testng] 02:45:42,559 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:45:42,559 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:45:42,599 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-06-19_02-45-42.log] [testng] 02:45:42,600 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration. [testng] [2024-06-19 02:45:42,602] [main] testng.directory = /data [testng] [2024-06-19 02:45:42,602] [main] testng.configDirectory = /config [testng] [2024-06-19 02:45:42,611] [main] testng.multiplier = 1.0 [testng] [2024-06-19 02:45:42,612] [main] testng.in-memory = false [testng] [2024-06-19 02:45:42,612] [main] testng.allow-missing = false [testng] [2024-06-19 02:45:42,613] [main] user.language = en [testng] [2024-06-19 02:45:42,613] [main] user.country = ${user.country} [testng] [2024-06-19 02:45:42,613] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-06-19 02:45:44,378] [main] ---------------------------------------- [testng] [2024-06-19 02:45:44,378] [main] Total files: 31 [testng] [2024-06-19 02:45:44,379] [main] Scan time: 1.765 s (56 ms/file) [testng] [2024-06-19 02:45:44,379] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 30 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-06-19 02:45:46,692] [pool-1-thread-1] Initializing /data/vikram/Captured 3.jp2: [testng] 02:45:46,692 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:45:46,692 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:45:46,693 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-06-19_02-45-46.log] [testng] 02:45:46,693 |-INFO in ch.qos.logback.core.sift.SiftProcessor@33e2b656 - End of configuration. [testng] [2024-06-19 02:45:46,731] [pool-1-thread-12] Initializing /data/vikram/Captured 2.jp2: [testng] 02:45:46,731 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:45:46,731 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:45:46,732 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-06-19_02-45-46.log] [testng] 02:45:46,733 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3c011192 - End of configuration. [testng] [2024-06-19 02:45:46,757] [pool-1-thread-11] Initializing /data/david/multichannel-2d test-non MBF-type.jp2: [testng] 02:45:46,757 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:45:46,757 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:45:46,758 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-06-19_02-45-46.log] [testng] 02:45:46,758 |-INFO in ch.qos.logback.core.sift.SiftProcessor@651198ec - End of configuration. [testng] [2024-06-19 02:45:46,784] [pool-1-thread-10] Initializing /data/angel/002_L050071_32_01_09_x2.jp2: [testng] 02:45:46,784 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:45:46,784 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:45:46,785 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-06-19_02-45-46.log] [testng] 02:45:46,785 |-INFO in ch.qos.logback.core.sift.SiftProcessor@50472524 - End of configuration. [testng] [2024-06-19 02:45:46,867] [pool-1-thread-9] Initializing /data/david/multichannel-2d test.jp2: [testng] 02:45:46,867 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:45:46,867 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:45:46,868 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-06-19_02-45-46.log] [testng] 02:45:46,869 |-INFO in ch.qos.logback.core.sift.SiftProcessor@328431f9 - End of configuration. [testng] [2024-06-19 02:45:46,894] [pool-1-thread-8] Initializing /data/big-images/2kx2k.jpf: [testng] 02:45:46,895 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:45:46,895 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:45:46,895 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-06-19_02-45-46.log] [testng] 02:45:46,896 |-INFO in ch.qos.logback.core.sift.SiftProcessor@a098357 - End of configuration. [testng] [2024-06-19 02:45:46,921] [pool-1-thread-7] Initializing /data/mike/LCM4-1-cr10-cleaned.jp2: [testng] 02:45:46,921 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:45:46,921 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:45:46,922 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-06-19_02-45-46.log] [testng] 02:45:46,922 |-INFO in ch.qos.logback.core.sift.SiftProcessor@60c636ac - End of configuration. [testng] [2024-06-19 02:45:46,952] [pool-1-thread-6] Initializing /data/kraig/head.jp2: [testng] 02:45:46,952 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:45:46,952 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:45:46,953 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-06-19_02-45-46.log] [testng] 02:45:46,953 |-INFO in ch.qos.logback.core.sift.SiftProcessor@25b9e784 - End of configuration. [testng] [2024-06-19 02:45:46,985] [pool-1-thread-5] Initializing /data/david/multichannel-3d-non-MBF-trial-2.jpx: [testng] 02:45:46,986 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:45:46,986 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:45:46,987 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-06-19_02-45-46.log] [testng] 02:45:46,988 |-INFO in ch.qos.logback.core.sift.SiftProcessor@23f9bf1d - End of configuration. [testng] [2024-06-19 02:45:47,191] [pool-1-thread-4] Initializing /data/vikram/Captured 5.jp2: [testng] 02:45:47,191 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:45:47,191 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:45:47,192 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-06-19_02-45-47.log] [testng] 02:45:47,193 |-INFO in ch.qos.logback.core.sift.SiftProcessor@9420dcc - End of configuration. [testng] [2024-06-19 02:45:47,221] [pool-1-thread-3] Initializing /data/david/multichannel-3d-MBF-type.jpx: [testng] 02:45:47,222 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:45:47,222 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:45:47,222 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-06-19_02-45-47.log] [testng] 02:45:47,223 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3f7ba0e5 - End of configuration. [testng] [2024-06-19 02:45:47,577] [pool-1-thread-2] Initializing /data/vikram/Captured 4.jp2: [testng] 02:45:47,578 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:45:47,578 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:45:47,579 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-06-19_02-45-47.log] [testng] 02:45:47,579 |-INFO in ch.qos.logback.core.sift.SiftProcessor@58878737 - End of configuration. [testng] [2024-06-19 02:45:50,202] [pool-1-thread-12] Initializing /data/angel/052_L050071_56_x2hv.jp2: [testng] [2024-06-19 02:45:50,263] [pool-1-thread-1] Initializing /data/frans/flower.jp2: [testng] [2024-06-19 02:45:50,285] [pool-1-thread-2] Initializing /data/david/000000_000001.jpx: [testng] [2024-06-19 02:45:50,349] [pool-1-thread-4] Initializing /data/venu/Multichannel 3.jp2: [testng] [2024-06-19 02:45:50,449] [pool-1-thread-6] Initializing /data/big-images/4kx4k.jpf: [testng] [2024-06-19 02:45:54,678] [pool-1-thread-7] Initializing /data/misc/clown-rgb.jp2: [testng] [2024-06-19 02:45:55,497] [pool-1-thread-7] Initializing /data/mike/LCM-4-3-color-cleaned-LOCI.tiff: [testng] [2024-06-19 02:45:56,328] [pool-1-thread-7] Initializing /data/david/cy5-tph.jp2: [testng] [2024-06-19 02:45:57,381] [pool-1-thread-2] Initializing /data/big-images/8kx8k.jpf: [testng] [2024-06-19 02:45:59,480] [pool-1-thread-8] Initializing /data/vikram/Captured 1.jp2: [testng] [2024-06-19 02:46:00,331] [pool-1-thread-8] Initializing /data/venu/Multichannel 3a.jpg: [testng] [2024-06-19 02:46:01,002] [pool-1-thread-10] Initializing /data/mario/b0bCDME-0007_wB05_s1_z1_t1_cGFP_u001.jp2: [testng] [2024-06-19 02:46:01,524] [pool-1-thread-8] Initializing /data/mike/LCM-4-3-color-cleaned.tiff: [testng] [2024-06-19 02:46:02,460] [pool-1-thread-4] Initializing /data/mike/LCM-4-3-color-cleaned.jp2: [testng] [2024-06-19 02:46:02,962] [pool-1-thread-8] Initializing /data/misc/clown-rgb.jpc: [testng] [2024-06-19 02:46:03,607] [pool-1-thread-8] Initializing /data/misc/clown-rgb.jbig: [testng] [2024-06-19 02:46:03,775] [pool-1-thread-12] Initializing /data/david/C1R1_FOS.jp2: [testng] [2024-06-19 02:46:04,036] [pool-1-thread-8] Initializing /data/aryeh/flour 12.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 5 seconds Finished: SUCCESS