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Started by upstream project "BIOFORMATS-test-repo" build number 302 originally caused by: Started by upstream project "Trigger" build number 324 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@3 [BIOFORMATS-test-folder@3] $ /bin/bash -xe /tmp/jenkins18104319425273892397.sh + '[' leica-tcs = slidebook ']' ++ date +%u + '[' 7 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_47871_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] 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] 05:35:03,980 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 05:35:03,981 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - No custom configurators were discovered as a service. [testng] 05:35:03,981 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 05:35:03,982 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 05:35:03,982 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 05:35:03,983 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 05:35:03,983 |-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] 05:35:03,983 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 05:35:03,983 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 05:35:03,984 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 05:35:03,984 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 05:35:03,984 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 05:35:04,138 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 05:35:04,138 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 05:35:04,158 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 05:35:04,158 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 05:35:04,163 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 05:35:04,163 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 05:35:04,163 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 05:35:04,164 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 05:35:04,164 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2e3967ea - End of configuration. [testng] 05:35:04,165 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@2e6a8155 - Registering current configuration as safe fallback point [testng] 05:35:04,165 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 182 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-12-29 05:35:04,173] [main] java.version = 17.0.2 [testng] 05:35:04,176 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 05:35:04,176 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:35:04,213 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-29_05-35-04.log] [testng] 05:35:04,214 |-INFO in ch.qos.logback.core.sift.SiftProcessor@798162bc - End of configuration. [testng] [2024-12-29 05:35:04,216] [main] testng.directory = /data [testng] [2024-12-29 05:35:04,216] [main] testng.configDirectory = /config [testng] [2024-12-29 05:35:04,225] [main] testng.multiplier = 1.0 [testng] [2024-12-29 05:35:04,226] [main] testng.in-memory = false [testng] [2024-12-29 05:35:04,226] [main] testng.allow-missing = false [testng] [2024-12-29 05:35:04,226] [main] user.language = en [testng] [2024-12-29 05:35:04,226] [main] user.country = ${user.country} [testng] [2024-12-29 05:35:04,226] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-12-29 05:35:20,950] [main] ---------------------------------------- [testng] [2024-12-29 05:35:20,951] [main] Total files: 944 [testng] [2024-12-29 05:35:20,951] [main] Scan time: 16.724 s (17 ms/file) [testng] [2024-12-29 05:35:20,951] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 15 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-12-29 05:38:03,030] [pool-1-thread-1] Initializing /data/stjude/AntoDay4dblcatdataGRP.tif: [testng] 05:38:03,031 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 05:38:03,031 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:38:03,032 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-29_05-38-03.log] [testng] 05:38:03,033 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3b0c4bda - End of configuration. [testng] [2024-12-29 05:38:05,643] [pool-1-thread-12] Initializing /data/stjude/Antoday1dblcatsglGRP.tif: [testng] 05:38:05,643 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 05:38:05,643 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:38:05,644 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-29_05-38-05.log] [testng] 05:38:05,644 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7e415ae3 - End of configuration. [testng] [2024-12-29 05:38:08,273] [pool-1-thread-11] Initializing /data/stjude/AntoDayzerocy3GRP.tif: [testng] 05:38:08,273 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 05:38:08,273 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:38:08,274 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-29_05-38-08.log] [testng] 05:38:08,274 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6e1302c3 - End of configuration. [testng] [2024-12-29 05:38:12,321] [pool-1-thread-10] Initializing /data/brian/Series002_z01.tif: [testng] 05:38:12,321 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 05:38:12,321 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:38:12,322 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-29_05-38-12.log] [testng] 05:38:12,322 |-INFO in ch.qos.logback.core.sift.SiftProcessor@554e2930 - End of configuration. [testng] [2024-12-29 05:38:15,841] [pool-1-thread-9] Initializing /data/martin/Series028_z00_ch00.tif: [testng] 05:38:15,841 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 05:38:15,841 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:38:15,842 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-29_05-38-15.log] [testng] 05:38:15,842 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1e362cb5 - End of configuration. [testng] [2024-12-29 05:38:19,110] [pool-1-thread-8] Initializing /data/stjude/AntoDay4dblmy2GRP.tif: [testng] 05:38:19,110 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 05:38:19,110 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:38:19,111 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-29_05-38-19.log] [testng] 05:38:19,111 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7e7082e7 - End of configuration. [testng] [2024-12-29 05:38:21,768] [pool-1-thread-7] Initializing /data/stjude/Antoday1dblmysglGRP.tif: [testng] 05:38:21,768 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 05:38:21,768 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:38:21,769 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-29_05-38-21.log] [testng] 05:38:21,769 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2f4df108 - End of configuration. [testng] [2024-12-29 05:38:24,336] [pool-1-thread-6] Initializing /data/stjude/Antoday1dblcat2dataGRP.tif: [testng] 05:38:24,336 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 05:38:24,336 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:38:24,337 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-29_05-38-24.log] [testng] 05:38:24,337 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3e1a0082 - End of configuration. [testng] [2024-12-29 05:38:26,480] [pool-1-thread-5] Initializing /data/stjude/AntoDayzerocy3OVP.tif: [testng] 05:38:26,480 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 05:38:26,480 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:38:26,481 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-29_05-38-26.log] [testng] 05:38:26,481 |-INFO in ch.qos.logback.core.sift.SiftProcessor@392f6c41 - End of configuration. [testng] [2024-12-29 05:38:29,600] [pool-1-thread-4] Initializing /data/stjude/AntoDay1cy3/c01f0001.TIF: [testng] 05:38:29,601 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 05:38:29,601 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:38:29,601 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-29_05-38-29.log] [testng] 05:38:29,602 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2b6081c8 - End of configuration. [testng] [2024-12-29 05:38:31,630] [pool-1-thread-3] Initializing /data/primate/Leica_Image.tif: [testng] 05:38:31,630 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 05:38:31,630 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:38:31,631 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-29_05-38-31.log] [testng] 05:38:31,632 |-INFO in ch.qos.logback.core.sift.SiftProcessor@45139bd0 - End of configuration. [testng] [2024-12-29 05:38:33,687] [pool-1-thread-2] Initializing /data/stjude/AntoDay1dblGRP.tif: [testng] 05:38:33,687 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 05:38:33,687 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:38:33,688 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-29_05-38-33.log] [testng] 05:38:33,688 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4c028613 - End of configuration. [testng] [2024-12-29 05:38:53,505] [pool-1-thread-4] Initializing /data/stjude/AntoDay4dblmyGRP.tif: [testng] [2024-12-29 05:38:56,933] [pool-1-thread-3] Initializing /data/dave/series 35/042911_Series035_t00_z000_ch00.tif: [testng] [2024-12-29 05:40:45,851] [pool-1-thread-10] Initializing /data/brian/Series002_z00_ch00.tif: [testng] 07:38:47,093 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 07:38:47,094 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:38:47,095 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-29_07-38-47.log] [testng] 07:38:47,095 |-INFO in ch.qos.logback.core.sift.SiftProcessor@448b808a - 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: 123 minutes 47 seconds Finished: SUCCESS