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Started by upstream project "BIOFORMATS-test-repo" build number 29 originally caused by: Started by upstream project "Trigger" build number 32 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder [BIOFORMATS-test-folder] $ /bin/bash -xe /tmp/jenkins17284805393341980661.sh + '[' jpeg2000 = slidebook ']' ++ date +%u + '[' 3 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_3900_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] 02:41:34,976 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 02:41:34,977 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service. [testng] 02:41:34,977 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:41:34,978 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:41:34,979 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 02:41:34,979 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 02:41:34,979 |-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] 02:41:34,979 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:41:34,980 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:41:34,980 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 02:41:34,981 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 02:41:34,981 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 02:41:35,184 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:41:35,185 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:41:35,207 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:41:35,207 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:41:35,213 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:41:35,213 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:41:35,213 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:41:35,213 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:41:35,213 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration. [testng] 02:41:35,214 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point [testng] 02:41:35,214 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 234 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-04-10 02:41:35,223] [main] java.version = 17.0.2 [testng] 02:41:35,226 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:41:35,226 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:41:35,265 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-04-10_02-41-35.log] [testng] 02:41:35,266 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration. [testng] [2024-04-10 02:41:35,268] [main] testng.directory = /data [testng] [2024-04-10 02:41:35,268] [main] testng.configDirectory = /config [testng] [2024-04-10 02:41:35,277] [main] testng.multiplier = 1.0 [testng] [2024-04-10 02:41:35,278] [main] testng.in-memory = false [testng] [2024-04-10 02:41:35,278] [main] testng.allow-missing = false [testng] [2024-04-10 02:41:35,278] [main] user.language = en [testng] [2024-04-10 02:41:35,278] [main] user.country = ${user.country} [testng] [2024-04-10 02:41:35,278] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-04-10 02:41:37,364] [main] ---------------------------------------- [testng] [2024-04-10 02:41:37,364] [main] Total files: 31 [testng] [2024-04-10 02:41:37,364] [main] Scan time: 2.086 s (67 ms/file) [testng] [2024-04-10 02:41:37,364] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 30 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-04-10 02:41:40,107] [pool-1-thread-1] Initializing /data/vikram/Captured 3.jp2: [testng] 02:41:40,108 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:41:40,108 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:41:40,110 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-04-10_02-41-40.log] [testng] 02:41:40,110 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7960b374 - End of configuration. [testng] [2024-04-10 02:41:40,162] [pool-1-thread-12] Initializing /data/vikram/Captured 2.jp2: [testng] 02:41:40,162 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:41:40,163 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:41:40,164 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-04-10_02-41-40.log] [testng] 02:41:40,164 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3c011192 - End of configuration. [testng] [2024-04-10 02:41:40,245] [pool-1-thread-11] Initializing /data/david/multichannel-2d test-non MBF-type.jp2: [testng] 02:41:40,245 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:41:40,245 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:41:40,246 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-04-10_02-41-40.log] [testng] 02:41:40,246 |-INFO in ch.qos.logback.core.sift.SiftProcessor@140cedc1 - End of configuration. [testng] [2024-04-10 02:41:40,275] [pool-1-thread-10] Initializing /data/angel/002_L050071_32_01_09_x2.jp2: [testng] 02:41:40,275 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:41:40,275 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:41:40,276 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-04-10_02-41-40.log] [testng] 02:41:40,277 |-INFO in ch.qos.logback.core.sift.SiftProcessor@39fb4c7c - End of configuration. [testng] [2024-04-10 02:41:40,334] [pool-1-thread-9] Initializing /data/david/multichannel-2d test.jp2: [testng] 02:41:40,334 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:41:40,334 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:41:40,335 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-04-10_02-41-40.log] [testng] 02:41:40,335 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1cc834d4 - End of configuration. [testng] [2024-04-10 02:41:40,362] [pool-1-thread-8] Initializing /data/big-images/2kx2k.jpf: [testng] 02:41:40,363 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:41:40,363 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:41:40,363 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-04-10_02-41-40.log] [testng] 02:41:40,364 |-INFO in ch.qos.logback.core.sift.SiftProcessor@52817c70 - End of configuration. [testng] [2024-04-10 02:41:40,374] [pool-1-thread-7] Initializing /data/mike/LCM4-1-cr10-cleaned.jp2: [testng] 02:41:40,375 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:41:40,375 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:41:40,375 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-04-10_02-41-40.log] [testng] 02:41:40,376 |-INFO in ch.qos.logback.core.sift.SiftProcessor@334b391d - End of configuration. [testng] [2024-04-10 02:41:40,400] [pool-1-thread-6] Initializing /data/kraig/head.jp2: [testng] 02:41:40,400 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:41:40,400 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:41:40,401 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-04-10_02-41-40.log] [testng] 02:41:40,401 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2e447e47 - End of configuration. [testng] [2024-04-10 02:41:40,451] [pool-1-thread-5] Initializing /data/david/multichannel-3d-non-MBF-trial-2.jpx: [testng] 02:41:40,451 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:41:40,451 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:41:40,451 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-04-10_02-41-40.log] [testng] 02:41:40,452 |-INFO in ch.qos.logback.core.sift.SiftProcessor@220a4857 - End of configuration. [testng] [2024-04-10 02:41:40,716] [pool-1-thread-4] Initializing /data/vikram/Captured 5.jp2: [testng] 02:41:40,717 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:41:40,717 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:41:40,718 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-04-10_02-41-40.log] [testng] 02:41:40,718 |-INFO in ch.qos.logback.core.sift.SiftProcessor@25b9e784 - End of configuration. [testng] [2024-04-10 02:41:40,800] [pool-1-thread-3] Initializing /data/david/multichannel-3d-MBF-type.jpx: [testng] 02:41:40,801 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:41:40,801 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:41:40,801 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-04-10_02-41-40.log] [testng] 02:41:40,802 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6679161c - End of configuration. [testng] [2024-04-10 02:41:41,422] [pool-1-thread-2] Initializing /data/vikram/Captured 4.jp2: [testng] 02:41:41,422 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:41:41,422 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:41:41,423 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-04-10_02-41-41.log] [testng] 02:41:41,423 |-INFO in ch.qos.logback.core.sift.SiftProcessor@23eb7642 - End of configuration. [testng] [2024-04-10 02:41:43,893] [pool-1-thread-1] Initializing /data/angel/052_L050071_56_x2hv.jp2: [testng] [2024-04-10 02:41:43,961] [pool-1-thread-12] Initializing /data/frans/flower.jp2: [testng] [2024-04-10 02:41:43,995] [pool-1-thread-4] Initializing /data/david/000000_000001.jpx: [testng] [2024-04-10 02:41:44,057] [pool-1-thread-2] Initializing /data/venu/Multichannel 3.jp2: [testng] [2024-04-10 02:41:44,154] [pool-1-thread-6] Initializing /data/big-images/4kx4k.jpf: [testng] [2024-04-10 02:41:48,157] [pool-1-thread-7] Initializing /data/misc/clown-rgb.jp2: [testng] [2024-04-10 02:41:48,890] [pool-1-thread-7] Initializing /data/mike/LCM-4-3-color-cleaned-LOCI.tiff: [testng] [2024-04-10 02:41:49,742] [pool-1-thread-7] Initializing /data/david/cy5-tph.jp2: [testng] [2024-04-10 02:41:51,186] [pool-1-thread-4] Initializing /data/big-images/8kx8k.jpf: [testng] [2024-04-10 02:41:52,092] [pool-1-thread-8] Initializing /data/vikram/Captured 1.jp2: [testng] [2024-04-10 02:41:52,956] [pool-1-thread-8] Initializing /data/venu/Multichannel 3a.jpg: [testng] [2024-04-10 02:41:54,156] [pool-1-thread-8] Initializing /data/mario/b0bCDME-0007_wB05_s1_z1_t1_cGFP_u001.jp2: [testng] [2024-04-10 02:41:54,327] [pool-1-thread-10] Initializing /data/mike/LCM-4-3-color-cleaned.tiff: [testng] [2024-04-10 02:41:55,503] [pool-1-thread-10] Initializing /data/mike/LCM-4-3-color-cleaned.jp2: [testng] [2024-04-10 02:41:56,661] [pool-1-thread-2] Initializing /data/misc/clown-rgb.jpc: [testng] [2024-04-10 02:41:57,345] [pool-1-thread-2] Initializing /data/misc/clown-rgb.jbig: [testng] [2024-04-10 02:41:57,707] [pool-1-thread-2] Initializing /data/david/C1R1_FOS.jp2: [testng] [2024-04-10 02:41:58,058] [pool-1-thread-1] 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 3 seconds Finished: SUCCESS