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Started by upstream project "BIOFORMATS-test-repo" build number 9 originally caused by: Started by upstream project "Trigger" build number 12 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/jenkins4780611313630374184.sh + '[' jpeg2000 = slidebook ']' ++ date +%u + '[' 6 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_1438_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] WARNING: An illegal reflective access operation has occurred [testng] WARNING: Illegal reflective access by org.kohsuke.file_leak_detector.Listener (file:/home/build/.m2/repository/org/kohsuke/file-leak-detector/1.18/file-leak-detector-1.18-jar-with-dependencies.jar) to field java.net.SocketImpl.socket [testng] WARNING: Please consider reporting this to the maintainers of org.kohsuke.file_leak_detector.Listener [testng] WARNING: Use --illegal-access=warn to enable warnings of further illegal reflective access operations [testng] WARNING: All illegal access operations will be denied in a future release [testng] File leak detector installed [testng] 02:34:29,627 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 02:34:29,628 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - No custom configurators were discovered as a service. [testng] 02:34:29,628 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:34:29,629 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:34:29,630 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 02:34:29,630 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 02:34:29,630 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 02:34:29,630 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:34:29,631 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:34:29,632 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 02:34:29,632 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 02:34:29,632 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 02:34:29,798 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:34:29,798 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:34:29,819 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:34:29,819 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:34:29,824 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:34:29,825 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:34:29,825 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:34:29,826 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:34:29,826 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2794eab6 - End of configuration. [testng] 02:34:29,826 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6c1a5b54 - Registering current configuration as safe fallback point [testng] 02:34:29,826 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 195 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-03-23 02:34:29,835] [main] java.version = 11.0.16 [testng] 02:34:29,838 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:34:29,838 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:34:29,878 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-03-23_02-34-29.log] [testng] 02:34:29,880 |-INFO in ch.qos.logback.core.sift.SiftProcessor@642a7222 - End of configuration. [testng] [2024-03-23 02:34:29,882] [main] testng.directory = /data [testng] [2024-03-23 02:34:29,882] [main] testng.configDirectory = /config [testng] [2024-03-23 02:34:29,892] [main] testng.multiplier = 1.0 [testng] [2024-03-23 02:34:29,893] [main] testng.in-memory = false [testng] [2024-03-23 02:34:29,893] [main] testng.allow-missing = false [testng] [2024-03-23 02:34:29,893] [main] user.language = en [testng] [2024-03-23 02:34:29,893] [main] user.country = ${user.country} [testng] [2024-03-23 02:34:29,894] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-03-23 02:34:38,520] [main] ---------------------------------------- [testng] [2024-03-23 02:34:38,520] [main] Total files: 31 [testng] [2024-03-23 02:34:38,520] [main] Scan time: 8.626 s (278 ms/file) [testng] [2024-03-23 02:34:38,521] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 30 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-03-23 02:34:46,350] [pool-1-thread-1] Initializing /data/big-images/2kx2k.jpf: [testng] 02:34:46,351 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:34:46,351 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:34:46,353 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-03-23_02-34-46.log] [testng] 02:34:46,353 |-INFO in ch.qos.logback.core.sift.SiftProcessor@58a32bf3 - End of configuration. [testng] [2024-03-23 02:34:46,484] [pool-1-thread-12] Initializing /data/misc/clown-rgb.jp2: [testng] 02:34:46,485 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:34:46,485 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:34:46,488 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-03-23_02-34-46.log] [testng] 02:34:46,488 |-INFO in ch.qos.logback.core.sift.SiftProcessor@74bc4e9f - End of configuration. [testng] [2024-03-23 02:34:46,706] [pool-1-thread-11] Initializing /data/vikram/Captured 4.jp2: [testng] 02:34:46,706 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:34:46,706 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:34:46,707 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-03-23_02-34-46.log] [testng] 02:34:46,707 |-INFO in ch.qos.logback.core.sift.SiftProcessor@ab18ff7 - End of configuration. [testng] [2024-03-23 02:34:46,881] [pool-1-thread-10] Initializing /data/misc/clown-rgb.jbig: [testng] 02:34:46,881 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:34:46,881 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:34:46,882 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-03-23_02-34-46.log] [testng] 02:34:46,882 |-INFO in ch.qos.logback.core.sift.SiftProcessor@72eb9e7c - End of configuration. [testng] [2024-03-23 02:34:47,241] [pool-1-thread-9] Initializing /data/david/multichannel-3d-MBF-type.jpx: [testng] 02:34:47,241 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:34:47,241 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:34:47,242 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-03-23_02-34-47.log] [testng] 02:34:47,242 |-INFO in ch.qos.logback.core.sift.SiftProcessor@e83968a - End of configuration. [testng] [2024-03-23 02:34:47,945] [pool-1-thread-8] Initializing /data/mike/LCM-4-3-color-cleaned.tiff: [testng] 02:34:47,945 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:34:47,946 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:34:47,946 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-03-23_02-34-47.log] [testng] 02:34:47,946 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1b9c822d - End of configuration. [testng] [2024-03-23 02:34:48,249] [pool-1-thread-7] Initializing /data/david/cy5-tph.jp2: [testng] 02:34:48,250 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:34:48,250 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:34:48,251 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-03-23_02-34-48.log] [testng] 02:34:48,251 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3db161ea - End of configuration. [testng] [2024-03-23 02:34:48,453] [pool-1-thread-6] Initializing /data/david/000000_000001.jpx: [testng] 02:34:48,453 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:34:48,453 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:34:48,454 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-03-23_02-34-48.log] [testng] 02:34:48,454 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1fb5bf1 - End of configuration. [testng] [2024-03-23 02:34:48,666] [pool-1-thread-5] Initializing /data/david/multichannel-3d-non-MBF-trial-2.jpx: [testng] 02:34:48,667 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:34:48,667 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:34:48,668 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-03-23_02-34-48.log] [testng] 02:34:48,668 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7e65ca21 - End of configuration. [testng] [2024-03-23 02:34:48,924] [pool-1-thread-4] Initializing /data/venu/Multichannel 3a.jpg: [testng] 02:34:48,925 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:34:48,925 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:34:48,926 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-03-23_02-34-48.log] [testng] 02:34:48,926 |-INFO in ch.qos.logback.core.sift.SiftProcessor@268cf3d7 - End of configuration. [testng] [2024-03-23 02:34:49,010] [pool-1-thread-3] Initializing /data/mike/LCM-4-3-color-cleaned.jp2: [testng] 02:34:49,010 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:34:49,011 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:34:49,011 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-03-23_02-34-49.log] [testng] 02:34:49,011 |-INFO in ch.qos.logback.core.sift.SiftProcessor@33b66b52 - End of configuration. [testng] [2024-03-23 02:34:49,145] [pool-1-thread-2] Initializing /data/big-images/8kx8k.jpf: [testng] 02:34:49,145 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:34:49,145 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:34:49,146 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-03-23_02-34-49.log] [testng] 02:34:49,146 |-INFO in ch.qos.logback.core.sift.SiftProcessor@34458d1 - End of configuration. [testng] [2024-03-23 02:34:51,625] [pool-1-thread-12] Initializing /data/venu/Multichannel 3.jp2: [testng] [2024-03-23 02:34:51,922] [pool-1-thread-10] Initializing /data/kraig/head.jp2: [testng] [2024-03-23 02:34:52,241] [pool-1-thread-4] Initializing /data/angel/002_L050071_32_01_09_x2.jp2: [testng] [2024-03-23 02:34:52,490] [pool-1-thread-8] Initializing /data/mario/b0bCDME-0007_wB05_s1_z1_t1_cGFP_u001.jp2: [testng] [2024-03-23 02:34:52,650] [pool-1-thread-11] Initializing /data/mike/LCM4-1-cr10-cleaned.jp2: [testng] [2024-03-23 02:34:54,534] [pool-1-thread-10] Initializing /data/angel/052_L050071_56_x2hv.jp2: [testng] [2024-03-23 02:34:56,955] [pool-1-thread-6] Initializing /data/vikram/Captured 5.jp2: [testng] [2024-03-23 02:34:58,819] [pool-1-thread-11] Initializing /data/misc/clown-rgb.jpc: [testng] [2024-03-23 02:34:58,937] [pool-1-thread-8] Initializing /data/big-images/4kx4k.jpf: [testng] [2024-03-23 02:34:59,048] [pool-1-thread-6] Initializing /data/aryeh/flour 12.jp2: [testng] [2024-03-23 02:34:59,742] [pool-1-thread-1] Initializing /data/david/multichannel-2d test-non MBF-type.jp2: [testng] [2024-03-23 02:35:00,491] [pool-1-thread-11] Initializing /data/david/multichannel-2d test.jp2: [testng] [2024-03-23 02:35:01,445] [pool-1-thread-6] Initializing /data/vikram/Captured 3.jp2: [testng] [2024-03-23 02:35:03,142] [pool-1-thread-3] Initializing /data/vikram/Captured 1.jp2: [testng] [2024-03-23 02:35:03,275] [pool-1-thread-6] Initializing /data/frans/flower.jp2: [testng] [2024-03-23 02:35:04,465] [pool-1-thread-12] Initializing /data/david/C1R1_FOS.jp2: [testng] [2024-03-23 02:35:05,080] [pool-1-thread-4] Initializing /data/mike/LCM-4-3-color-cleaned-LOCI.tiff: [testng] [2024-03-23 02:35:05,359] [pool-1-thread-3] Initializing /data/vikram/Captured 2.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 8 seconds Finished: SUCCESS