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Started by upstream project "BIOFORMATS-test-repo" build number 258 originally caused by: Started by upstream project "Trigger" build number 282 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@9 [BIOFORMATS-test-folder@9] $ /bin/bash -xe /tmp/jenkins18328778983955193792.sh + '[' fuji = slidebook ']' ++ date +%u + '[' 7 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_40730_merge_ci -v /uod/idr/repos/curated/fuji:/data -v /uod/idr-scratch/merge-ci/curated/fuji:/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] 02:41:00,290 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 02:41:00,291 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - No custom configurators were discovered as a service. [testng] 02:41:00,291 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:41:00,292 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:41:00,293 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 02:41:00,293 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 02:41:00,293 |-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] 02:41:00,293 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:41:00,294 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:41:00,294 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 02:41:00,295 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 02:41:00,295 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 02:41:00,480 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:41:00,481 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:41:00,505 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:41:00,505 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:41:00,512 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:41:00,512 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:41:00,512 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:41:00,513 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:41:00,513 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2e3967ea - End of configuration. [testng] 02:41:00,514 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@2e6a8155 - Registering current configuration as safe fallback point [testng] 02:41:00,514 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 220 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-11-17 02:41:00,524] [main] java.version = 17.0.2 [testng] 02:41:00,528 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:41:00,528 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:41:00,581 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-17_02-41-00.log] [testng] 02:41:00,583 |-INFO in ch.qos.logback.core.sift.SiftProcessor@798162bc - End of configuration. [testng] [2024-11-17 02:41:00,585] [main] testng.directory = /data [testng] [2024-11-17 02:41:00,585] [main] testng.configDirectory = /config [testng] [2024-11-17 02:41:00,595] [main] testng.multiplier = 1.0 [testng] [2024-11-17 02:41:00,596] [main] testng.in-memory = false [testng] [2024-11-17 02:41:00,596] [main] testng.allow-missing = false [testng] [2024-11-17 02:41:00,596] [main] user.language = en [testng] [2024-11-17 02:41:00,596] [main] user.country = ${user.country} [testng] [2024-11-17 02:41:00,596] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-11-17 02:41:10,496] [main] ---------------------------------------- [testng] [2024-11-17 02:41:10,496] [main] Total files: 24 [testng] [2024-11-17 02:41:10,496] [main] Scan time: 9.9 s (412 ms/file) [testng] [2024-11-17 02:41:10,497] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 9 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-11-17 02:41:23,972] [pool-1-thread-1] Initializing /data/venu/TPN_membraneC_1sec.img: [testng] 02:41:23,972 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:41:23,972 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:41:23,974 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-11-17_02-41-23.log] [testng] 02:41:23,974 |-INFO in ch.qos.logback.core.sift.SiftProcessor@56bd1b17 - End of configuration. [testng] [2024-11-17 02:41:24,265] [pool-1-thread-9] Initializing /data/bernie/090810_18hours/090810_18hours.tif: [testng] 02:41:24,265 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:41:24,265 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:41:24,266 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-11-17_02-41-24.log] [testng] 02:41:24,267 |-INFO in ch.qos.logback.core.sift.SiftProcessor@57ba6107 - End of configuration. [testng] [2024-11-17 02:41:24,788] [pool-1-thread-8] Initializing /data/bernie/120411_18hrs/120411_18hrs.tif: [testng] 02:41:24,788 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:41:24,788 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:41:24,792 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-11-17_02-41-24.log] [testng] 02:41:24,792 |-INFO in ch.qos.logback.core.sift.SiftProcessor@50e9e934 - End of configuration. [testng] [2024-11-17 02:41:25,360] [pool-1-thread-7] Initializing /data/bernie/101210_Substrate10mi/101210_Substrate10mi.tif: [testng] 02:41:25,360 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:41:25,361 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:41:25,361 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-11-17_02-41-25.log] [testng] 02:41:25,362 |-INFO in ch.qos.logback.core.sift.SiftProcessor@538366a3 - End of configuration. [testng] [2024-11-17 02:41:25,940] [pool-1-thread-6] Initializing /data/bernie/101110_Oligos_16hour/101110_Oligos_16hour.tif: [testng] 02:41:25,940 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:41:25,940 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:41:25,941 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-11-17_02-41-25.log] [testng] 02:41:25,941 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1190531a - End of configuration. [testng] [2024-11-17 02:41:26,561] [pool-1-thread-5] Initializing /data/bernie/080211_Exo_3hours/080211_Exo_3hours.tif: [testng] 02:41:26,561 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:41:26,561 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:41:26,562 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-11-17_02-41-26.log] [testng] 02:41:26,563 |-INFO in ch.qos.logback.core.sift.SiftProcessor@674419ed - End of configuration. [testng] [2024-11-17 02:41:27,101] [pool-1-thread-4] Initializing /data/bernie/070810_20hours/070810_20hours.tif: [testng] 02:41:27,101 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:41:27,101 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:41:27,102 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-11-17_02-41-27.log] [testng] 02:41:27,102 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3afa2a8d - End of configuration. [testng] [2024-11-17 02:41:27,564] [pool-1-thread-3] Initializing /data/bernie/101210_SubstrateTest/101210_SubstrateTest.tif: [testng] 02:41:27,565 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:41:27,565 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:41:27,566 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-11-17_02-41-27.log] [testng] 02:41:27,566 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6e4dfe4 - End of configuration. [testng] [2024-11-17 02:41:28,005] [pool-1-thread-2] Initializing /data/bernie/101110_Oligos_10min/101110_Oligos_10min.tif: [testng] 02:41:28,006 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:41:28,006 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:41:28,007 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-11-17_02-41-28.log] [testng] 02:41:28,008 |-INFO in ch.qos.logback.core.sift.SiftProcessor@30865f99 - End of configuration. [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 477, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 41 seconds Finished: SUCCESS