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Started by upstream project "BIOFORMATS-test-repo" build number 240 originally caused by: Started by upstream project "Trigger" build number 265 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/jenkins5941978312258607838.sh + '[' leica-tcs = slidebook ']' ++ date +%u + '[' 4 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_37819_merge_ci -v /uod/idr/repos/curated/leica-tcs:/data -v /uod/idr-scratch/merge-ci/curated/leica-tcs:/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warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] warning: [options] source value 8 is obsolete and will be removed in a future release [javac] warning: [options] target value 8 is obsolete and will be removed in a future release [javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options. [javac] 4 warnings 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] 03:21:16,246 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 03:21:16,247 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - No custom configurators were discovered as a service. [testng] 03:21:16,247 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 03:21:16,248 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 03:21:16,249 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 03:21:16,249 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 03:21:16,249 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 03:21:16,249 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 03:21:16,250 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 03:21:16,251 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 03:21:16,251 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 03:21:16,251 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 03:21:16,423 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 03:21:16,423 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 03:21:16,448 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 03:21:16,448 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 03:21:16,454 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 03:21:16,455 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 03:21:16,455 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 03:21:16,455 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 03:21:16,455 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@29215f06 - End of configuration. [testng] 03:21:16,456 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@b9b00e0 - Registering current configuration as safe fallback point [testng] 03:21:16,456 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 206 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-10-31 03:21:16,466] [main] java.version = 21 [testng] 03:21:16,469 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 03:21:16,469 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:21:16,513 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-31_03-21-16.log] [testng] 03:21:16,515 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1b919693 - End of configuration. [testng] [2024-10-31 03:21:16,516] [main] testng.directory = /data [testng] [2024-10-31 03:21:16,516] [main] testng.configDirectory = /config [testng] [2024-10-31 03:21:16,525] [main] testng.multiplier = 1.0 [testng] [2024-10-31 03:21:16,526] [main] testng.in-memory = false [testng] [2024-10-31 03:21:16,526] [main] testng.allow-missing = false [testng] [2024-10-31 03:21:16,526] [main] user.language = en [testng] [2024-10-31 03:21:16,526] [main] user.country = ${user.country} [testng] [2024-10-31 03:21:16,526] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-10-31 03:21:29,359] [main] ---------------------------------------- [testng] [2024-10-31 03:21:29,359] [main] Total files: 944 [testng] [2024-10-31 03:21:29,360] [main] Scan time: 12.833 s (13 ms/file) [testng] [2024-10-31 03:21:29,360] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 15 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-10-31 03:22:53,494] [pool-1-thread-1] Initializing /data/stjude/AntoDay1dblGRP.tif: [testng] 03:22:53,495 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 03:22:53,495 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:22:53,496 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-31_03-22-53.log] [testng] 03:22:53,497 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2d06383a - End of configuration. [testng] [2024-10-31 03:22:55,035] [pool-1-thread-12] Initializing /data/stjude/AntoDay4dblcatdataGRP.tif: [testng] 03:22:55,036 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 03:22:55,036 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:22:55,036 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-10-31_03-22-55.log] [testng] 03:22:55,037 |-INFO in ch.qos.logback.core.sift.SiftProcessor@8eb7490 - End of configuration. [testng] [2024-10-31 03:22:56,205] [pool-1-thread-11] Initializing /data/primate/Leica_Image.tif: [testng] 03:22:56,206 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 03:22:56,206 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:22:56,206 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-10-31_03-22-56.log] [testng] 03:22:56,207 |-INFO in ch.qos.logback.core.sift.SiftProcessor@114d4a87 - End of configuration. [testng] [2024-10-31 03:22:57,324] [pool-1-thread-10] Initializing /data/stjude/AntoDayzerocy3OVP.tif: [testng] 03:22:57,325 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 03:22:57,325 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:22:57,326 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-31_03-22-57.log] [testng] 03:22:57,327 |-INFO in ch.qos.logback.core.sift.SiftProcessor@18bc4e22 - End of configuration. [testng] [2024-10-31 03:22:58,662] [pool-1-thread-9] Initializing /data/stjude/AntoDay4dblmy2GRP.tif: [testng] 03:22:58,663 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 03:22:58,663 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:22:58,664 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-31_03-22-58.log] [testng] 03:22:58,664 |-INFO in ch.qos.logback.core.sift.SiftProcessor@66961918 - End of configuration. [testng] [2024-10-31 03:22:59,945] [pool-1-thread-8] Initializing /data/stjude/AntoDay1cy3/c01f0001.TIF: [testng] 03:22:59,945 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 03:22:59,945 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:22:59,946 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-31_03-22-59.log] [testng] 03:22:59,946 |-INFO in ch.qos.logback.core.sift.SiftProcessor@257b9d08 - End of configuration. [testng] [2024-10-31 03:23:01,127] [pool-1-thread-7] Initializing /data/stjude/Antoday1dblcat2dataGRP.tif: [testng] 03:23:01,127 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 03:23:01,127 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:23:01,128 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-31_03-23-01.log] [testng] 03:23:01,128 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4c3bfebd - End of configuration. [testng] [2024-10-31 03:23:02,252] [pool-1-thread-6] Initializing /data/stjude/AntoDayzerocy3GRP.tif: [testng] 03:23:02,252 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 03:23:02,252 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:23:02,253 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-31_03-23-02.log] [testng] 03:23:02,253 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7438bb7f - End of configuration. [testng] [2024-10-31 03:23:03,534] [pool-1-thread-5] Initializing /data/martin/Series028_z00_ch00.tif: [testng] 03:23:03,534 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 03:23:03,534 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:23:03,535 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-31_03-23-03.log] [testng] 03:23:03,535 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2ffc12ef - End of configuration. [testng] [2024-10-31 03:23:05,074] [pool-1-thread-4] Initializing /data/dave/series 35/042911_Series035_t00_z000_ch00.tif: [testng] 03:23:05,074 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 03:23:05,074 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:23:05,075 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-31_03-23-05.log] [testng] 03:23:05,075 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2a672113 - End of configuration. [testng] [2024-10-31 03:23:51,419] [pool-1-thread-3] Initializing /data/stjude/Antoday1dblmysglGRP.tif: [testng] 03:23:51,419 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 03:23:51,419 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:23:51,420 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-31_03-23-51.log] [testng] 03:23:51,421 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4e6f0245 - End of configuration. [testng] [2024-10-31 03:23:52,638] [pool-1-thread-2] Initializing /data/brian/Series002_z00_ch00.tif: [testng] 03:23:52,638 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 03:23:52,638 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:23:52,638 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-31_03-23-52.log] [testng] 03:23:52,639 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7ba2cebc - End of configuration. [testng] [2024-10-31 03:24:02,061] [pool-1-thread-8] Initializing /data/stjude/AntoDay4dblmyGRP.tif: [testng] [2024-10-31 03:24:03,596] [pool-1-thread-11] Initializing /data/brian/Series002_z01.tif: [testng] [2024-10-31 03:24:08,719] [pool-1-thread-2] Initializing /data/stjude/Antoday1dblcatsglGRP.tif: [testng] 04:34:41,268 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 04:34:41,268 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:34:41,269 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-31_04-34-41.log] [testng] 04:34:41,270 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2b0e9f30 - End of configuration. [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 795, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 73 minutes 29 seconds Finished: SUCCESS