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Started by upstream project "BIOFORMATS-test-repo" build number 20 originally caused by: Started by upstream project "Trigger" build number 23 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/jenkins10957186983209410813.sh + '[' jpeg2000 = slidebook ']' ++ date +%u + '[' 2 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_2588_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] 02:50:23,204 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 02:50:23,206 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - No custom configurators were discovered as a service. [testng] 02:50:23,206 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:50:23,207 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:50:23,207 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 02:50:23,208 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 02:50:23,208 |-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] 02:50:23,208 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:50:23,209 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:50:23,209 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 02:50:23,210 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 02:50:23,210 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 02:50:23,414 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:50:23,414 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:50:23,443 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:50:23,443 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:50:23,450 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:50:23,450 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:50:23,451 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:50:23,451 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:50:23,451 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2794eab6 - End of configuration. [testng] 02:50:23,452 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6c1a5b54 - Registering current configuration as safe fallback point [testng] 02:50:23,452 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 243 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-04-02 02:50:23,464] [main] java.version = 11.0.16 [testng] 02:50:23,468 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:50:23,469 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:50:23,510 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-04-02_02-50-23.log] [testng] 02:50:23,512 |-INFO in ch.qos.logback.core.sift.SiftProcessor@642a7222 - End of configuration. [testng] [2024-04-02 02:50:23,514] [main] testng.directory = /data [testng] [2024-04-02 02:50:23,514] [main] testng.configDirectory = /config [testng] [2024-04-02 02:50:23,523] [main] testng.multiplier = 1.0 [testng] [2024-04-02 02:50:23,524] [main] testng.in-memory = false [testng] [2024-04-02 02:50:23,525] [main] testng.allow-missing = false [testng] [2024-04-02 02:50:23,525] [main] user.language = en [testng] [2024-04-02 02:50:23,525] [main] user.country = ${user.country} [testng] [2024-04-02 02:50:23,525] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-04-02 02:50:25,901] [main] ---------------------------------------- [testng] [2024-04-02 02:50:25,901] [main] Total files: 31 [testng] [2024-04-02 02:50:25,902] [main] Scan time: 2.376 s (76 ms/file) [testng] [2024-04-02 02:50:25,902] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 30 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-04-02 02:50:28,890] [pool-1-thread-1] Initializing /data/big-images/2kx2k.jpf: [testng] 02:50:28,891 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:50:28,891 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:50:28,893 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-04-02_02-50-28.log] [testng] 02:50:28,894 |-INFO in ch.qos.logback.core.sift.SiftProcessor@41a29622 - End of configuration. [testng] [2024-04-02 02:50:28,920] [pool-1-thread-12] Initializing /data/misc/clown-rgb.jp2: [testng] 02:50:28,920 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:50:28,920 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:50:28,926 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-04-02_02-50-28.log] [testng] 02:50:28,927 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4be1342a - End of configuration. [testng] [2024-04-02 02:50:28,946] [pool-1-thread-11] Initializing /data/vikram/Captured 4.jp2: [testng] 02:50:28,947 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:50:28,947 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:50:28,948 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-04-02_02-50-28.log] [testng] 02:50:28,948 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5dea722e - End of configuration. [testng] [2024-04-02 02:50:29,003] [pool-1-thread-10] Initializing /data/misc/clown-rgb.jbig: [testng] 02:50:29,003 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:50:29,003 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:50:29,004 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-04-02_02-50-29.log] [testng] 02:50:29,005 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1eba536b - End of configuration. [testng] [2024-04-02 02:50:29,059] [pool-1-thread-9] Initializing /data/david/multichannel-3d-MBF-type.jpx: [testng] 02:50:29,060 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:50:29,060 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:50:29,060 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-04-02_02-50-29.log] [testng] 02:50:29,061 |-INFO in ch.qos.logback.core.sift.SiftProcessor@72eb9e7c - End of configuration. [testng] [2024-04-02 02:50:29,704] [pool-1-thread-8] Initializing /data/mike/LCM-4-3-color-cleaned.tiff: [testng] 02:50:29,705 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:50:29,705 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:50:29,705 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-04-02_02-50-29.log] [testng] 02:50:29,706 |-INFO in ch.qos.logback.core.sift.SiftProcessor@e83968a - End of configuration. [testng] [2024-04-02 02:50:29,818] [pool-1-thread-7] Initializing /data/david/cy5-tph.jp2: [testng] 02:50:29,818 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:50:29,818 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:50:29,819 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-04-02_02-50-29.log] [testng] 02:50:29,819 |-INFO in ch.qos.logback.core.sift.SiftProcessor@268cf3d7 - End of configuration. [testng] [2024-04-02 02:50:29,857] [pool-1-thread-6] Initializing /data/david/000000_000001.jpx: [testng] 02:50:29,857 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:50:29,857 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:50:29,858 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-04-02_02-50-29.log] [testng] 02:50:29,858 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1d025841 - End of configuration. [testng] [2024-04-02 02:50:29,948] [pool-1-thread-5] Initializing /data/david/multichannel-3d-non-MBF-trial-2.jpx: [testng] 02:50:29,948 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:50:29,948 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:50:29,949 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-04-02_02-50-29.log] [testng] 02:50:29,949 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2dfd2100 - End of configuration. [testng] [2024-04-02 02:50:30,237] [pool-1-thread-4] Initializing /data/venu/Multichannel 3a.jpg: [testng] 02:50:30,237 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:50:30,237 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:50:30,238 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-04-02_02-50-30.log] [testng] 02:50:30,238 |-INFO in ch.qos.logback.core.sift.SiftProcessor@89d83e7 - End of configuration. [testng] [2024-04-02 02:50:30,360] [pool-1-thread-3] Initializing /data/mike/LCM-4-3-color-cleaned.jp2: [testng] 02:50:30,360 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:50:30,360 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:50:30,361 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-04-02_02-50-30.log] [testng] 02:50:30,361 |-INFO in ch.qos.logback.core.sift.SiftProcessor@46ac704e - End of configuration. [testng] [2024-04-02 02:50:30,384] [pool-1-thread-2] Initializing /data/big-images/8kx8k.jpf: [testng] 02:50:30,385 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:50:30,385 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:50:30,386 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-04-02_02-50-30.log] [testng] 02:50:30,386 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4ebb6501 - End of configuration. [testng] [2024-04-02 02:50:32,499] [pool-1-thread-10] Initializing /data/venu/Multichannel 3.jp2: [testng] [2024-04-02 02:50:32,657] [pool-1-thread-12] Initializing /data/kraig/head.jp2: [testng] [2024-04-02 02:50:32,753] [pool-1-thread-4] Initializing /data/angel/002_L050071_32_01_09_x2.jp2: [testng] [2024-04-02 02:50:32,989] [pool-1-thread-11] Initializing /data/mario/b0bCDME-0007_wB05_s1_z1_t1_cGFP_u001.jp2: [testng] [2024-04-02 02:50:33,025] [pool-1-thread-8] Initializing /data/mike/LCM4-1-cr10-cleaned.jp2: [testng] [2024-04-02 02:50:34,299] [pool-1-thread-12] Initializing /data/angel/052_L050071_56_x2hv.jp2: [testng] [2024-04-02 02:50:38,575] [pool-1-thread-6] Initializing /data/vikram/Captured 5.jp2: [testng] [2024-04-02 02:50:39,270] [pool-1-thread-11] Initializing /data/misc/clown-rgb.jpc: [testng] [2024-04-02 02:50:39,490] [pool-1-thread-8] Initializing /data/big-images/4kx4k.jpf: [testng] [2024-04-02 02:50:39,771] [pool-1-thread-6] Initializing /data/aryeh/flour 12.jp2: [testng] [2024-04-02 02:50:40,038] [pool-1-thread-11] Initializing /data/david/multichannel-2d test-non MBF-type.jp2: [testng] [2024-04-02 02:50:41,082] [pool-1-thread-1] Initializing /data/david/multichannel-2d test.jp2: [testng] [2024-04-02 02:50:41,371] [pool-1-thread-6] Initializing /data/vikram/Captured 3.jp2: [testng] [2024-04-02 02:50:42,399] [pool-1-thread-6] Initializing /data/vikram/Captured 1.jp2: [testng] [2024-04-02 02:50:43,693] [pool-1-thread-6] Initializing /data/frans/flower.jp2: [testng] [2024-04-02 02:50:46,212] [pool-1-thread-3] Initializing /data/david/C1R1_FOS.jp2: [testng] [2024-04-02 02:50:46,503] [pool-1-thread-10] Initializing /data/mike/LCM-4-3-color-cleaned-LOCI.tiff: [testng] [2024-04-02 02:50:46,786] [pool-1-thread-4] 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 33 seconds Finished: SUCCESS