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Started by upstream project "BIOFORMATS-test-repo" build number 261 originally caused by: Started by upstream project "Trigger" build number 285 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/jenkins15256013032390074339.sh + '[' jpeg2000 = slidebook ']' ++ date +%u + '[' 3 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_41276_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] 05:34:07,092 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 05:34:07,093 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - No custom configurators were discovered as a service. [testng] 05:34:07,093 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 05:34:07,094 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 05:34:07,095 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 05:34:07,095 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 05:34:07,095 |-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] 05:34:07,095 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 05:34:07,096 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 05:34:07,096 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 05:34:07,097 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 05:34:07,097 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 05:34:07,268 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 05:34:07,269 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 05:34:07,292 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 05:34:07,292 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 05:34:07,298 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 05:34:07,298 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 05:34:07,298 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 05:34:07,298 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 05:34:07,298 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2e3967ea - End of configuration. [testng] 05:34:07,300 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@2e6a8155 - Registering current configuration as safe fallback point [testng] 05:34:07,300 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 204 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-11-20 05:34:07,309] [main] java.version = 17.0.2 [testng] 05:34:07,312 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 05:34:07,313 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:34:07,355 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-20_05-34-07.log] [testng] 05:34:07,357 |-INFO in ch.qos.logback.core.sift.SiftProcessor@798162bc - End of configuration. [testng] [2024-11-20 05:34:07,359] [main] testng.directory = /data [testng] [2024-11-20 05:34:07,359] [main] testng.configDirectory = /config [testng] [2024-11-20 05:34:07,368] [main] testng.multiplier = 1.0 [testng] [2024-11-20 05:34:07,369] [main] testng.in-memory = false [testng] [2024-11-20 05:34:07,369] [main] testng.allow-missing = false [testng] [2024-11-20 05:34:07,369] [main] user.language = en [testng] [2024-11-20 05:34:07,369] [main] user.country = ${user.country} [testng] [2024-11-20 05:34:07,369] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-11-20 05:34:36,441] [main] ---------------------------------------- [testng] [2024-11-20 05:34:36,441] [main] Total files: 31 [testng] [2024-11-20 05:34:36,442] [main] Scan time: 29.072 s (937 ms/file) [testng] [2024-11-20 05:34:36,442] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 30 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-11-20 05:35:11,084] [pool-1-thread-1] Initializing /data/mike/LCM-4-3-color-cleaned-LOCI.tiff: [testng] 05:35:11,085 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 05:35:11,085 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:35:11,087 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-11-20_05-35-11.log] [testng] 05:35:11,087 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2da44c98 - End of configuration. [testng] [2024-11-20 05:35:13,207] [pool-1-thread-12] Initializing /data/misc/clown-rgb.jp2: [testng] 05:35:13,208 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 05:35:13,208 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:35:13,208 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-11-20_05-35-13.log] [testng] 05:35:13,209 |-INFO in ch.qos.logback.core.sift.SiftProcessor@c678a7 - End of configuration. [testng] [2024-11-20 05:35:14,094] [pool-1-thread-11] Initializing /data/venu/Multichannel 3.jp2: [testng] 05:35:14,095 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 05:35:14,095 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:35:14,095 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-11-20_05-35-14.log] [testng] 05:35:14,096 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3c02297c - End of configuration. [testng] [2024-11-20 05:35:15,120] [pool-1-thread-10] Initializing /data/mario/b0bCDME-0007_wB05_s1_z1_t1_cGFP_u001.jp2: [testng] 05:35:15,120 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 05:35:15,120 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:35:15,121 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-11-20_05-35-15.log] [testng] 05:35:15,121 |-INFO in ch.qos.logback.core.sift.SiftProcessor@18685293 - End of configuration. [testng] [2024-11-20 05:35:15,959] [pool-1-thread-9] Initializing /data/vikram/Captured 3.jp2: [testng] 05:35:15,959 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 05:35:15,959 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:35:15,959 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-11-20_05-35-15.log] [testng] 05:35:15,960 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6732033b - End of configuration. [testng] [2024-11-20 05:35:16,840] [pool-1-thread-8] Initializing /data/mike/LCM4-1-cr10-cleaned.jp2: [testng] 05:35:16,840 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 05:35:16,840 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:35:16,841 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-11-20_05-35-16.log] [testng] 05:35:16,841 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2ec80086 - End of configuration. [testng] [2024-11-20 05:35:17,660] [pool-1-thread-7] Initializing /data/david/cy5-tph.jp2: [testng] 05:35:17,660 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 05:35:17,660 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:35:17,661 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-11-20_05-35-17.log] [testng] 05:35:17,661 |-INFO in ch.qos.logback.core.sift.SiftProcessor@50472524 - End of configuration. [testng] [2024-11-20 05:35:18,498] [pool-1-thread-6] Initializing /data/big-images/2kx2k.jpf: [testng] 05:35:18,499 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 05:35:18,499 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:35:18,500 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-11-20_05-35-18.log] [testng] 05:35:18,500 |-INFO in ch.qos.logback.core.sift.SiftProcessor@520dad48 - End of configuration. [testng] [2024-11-20 05:35:19,350] [pool-1-thread-5] Initializing /data/angel/052_L050071_56_x2hv.jp2: [testng] 05:35:19,350 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 05:35:19,350 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:35:19,351 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-11-20_05-35-19.log] [testng] 05:35:19,351 |-INFO in ch.qos.logback.core.sift.SiftProcessor@32e6a04d - End of configuration. [testng] [2024-11-20 05:35:20,320] [pool-1-thread-4] Initializing /data/mike/LCM-4-3-color-cleaned.tiff: [testng] 05:35:20,321 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 05:35:20,321 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:35:20,322 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-11-20_05-35-20.log] [testng] 05:35:20,322 |-INFO in ch.qos.logback.core.sift.SiftProcessor@44a7d508 - End of configuration. [testng] [2024-11-20 05:35:22,362] [pool-1-thread-3] Initializing /data/angel/002_L050071_32_01_09_x2.jp2: [testng] 05:35:22,362 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 05:35:22,362 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:35:22,363 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-11-20_05-35-22.log] [testng] 05:35:22,363 |-INFO in ch.qos.logback.core.sift.SiftProcessor@54b6a6a0 - End of configuration. [testng] [2024-11-20 05:35:23,255] [pool-1-thread-2] Initializing /data/mike/LCM-4-3-color-cleaned.jp2: [testng] 05:35:23,255 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 05:35:23,255 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:35:23,256 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-11-20_05-35-23.log] [testng] 05:35:23,256 |-INFO in ch.qos.logback.core.sift.SiftProcessor@324eee32 - End of configuration. [testng] [2024-11-20 05:35:31,344] [pool-1-thread-12] Initializing /data/vikram/Captured 2.jp2: [testng] [2024-11-20 05:35:32,253] [pool-1-thread-9] Initializing /data/david/multichannel-3d-non-MBF-trial-2.jpx: [testng] [2024-11-20 05:35:36,635] [pool-1-thread-8] Initializing /data/aryeh/flour 12.jp2: [testng] [2024-11-20 05:35:37,612] [pool-1-thread-10] Initializing /data/david/multichannel-2d test.jp2: [testng] [2024-11-20 05:35:39,029] [pool-1-thread-1] Initializing /data/big-images/8kx8k.jpf: [testng] [2024-11-20 05:35:39,963] [pool-1-thread-4] Initializing /data/kraig/head.jp2: [testng] [2024-11-20 05:35:41,456] [pool-1-thread-6] Initializing /data/frans/flower.jp2: [testng] [2024-11-20 05:35:43,065] [pool-1-thread-12] Initializing /data/vikram/Captured 1.jp2: [testng] [2024-11-20 05:35:46,029] [pool-1-thread-3] Initializing /data/big-images/4kx4k.jpf: [testng] [2024-11-20 05:35:46,957] [pool-1-thread-11] Initializing /data/venu/Multichannel 3a.jpg: [testng] [2024-11-20 05:35:47,172] [pool-1-thread-2] Initializing /data/david/000000_000001.jpx: [testng] [2024-11-20 05:35:48,122] [pool-1-thread-5] Initializing /data/david/C1R1_FOS.jp2: [testng] [2024-11-20 05:35:49,967] [pool-1-thread-8] Initializing /data/david/multichannel-3d-MBF-type.jpx: [testng] [2024-11-20 05:35:51,558] [pool-1-thread-4] Initializing /data/vikram/Captured 4.jp2: [testng] [2024-11-20 05:35:55,315] [pool-1-thread-12] Initializing /data/misc/clown-rgb.jbig: [testng] [2024-11-20 05:35:57,381] [pool-1-thread-11] Initializing /data/vikram/Captured 5.jp2: [testng] [2024-11-20 05:36:01,884] [pool-1-thread-4] Initializing /data/david/multichannel-2d test-non MBF-type.jp2: [testng] [2024-11-20 05:36:04,338] [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: 7 minutes 16 seconds Finished: SUCCESS