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Started by upstream project "BIOFORMATS-test-repo" build number 78 originally caused by: Started by upstream project "Trigger" build number 86 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/jenkins4316830355205760656.sh + '[' leica-tcs = slidebook ']' ++ date +%u + '[' 3 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_11924_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] 02:29:13,434 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 02:29:13,435 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service. [testng] 02:29:13,435 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:29:13,436 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:29:13,437 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 02:29:13,437 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 02:29:13,437 |-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] 02:29:13,437 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:29:13,438 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:29:13,438 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 02:29:13,439 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 02:29:13,439 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 02:29:13,607 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:29:13,607 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:29:13,631 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:29:13,631 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:29:13,637 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:29:13,638 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:29:13,638 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:29:13,638 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:29:13,638 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration. [testng] 02:29:13,639 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point [testng] 02:29:13,639 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 201 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-05-29 02:29:13,650] [main] java.version = 17.0.2 [testng] 02:29:13,653 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:29:13,653 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:29:13,696 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-05-29_02-29-13.log] [testng] 02:29:13,697 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration. [testng] [2024-05-29 02:29:13,699] [main] testng.directory = /data [testng] [2024-05-29 02:29:13,700] [main] testng.configDirectory = /config [testng] [2024-05-29 02:29:13,709] [main] testng.multiplier = 1.0 [testng] [2024-05-29 02:29:13,709] [main] testng.in-memory = false [testng] [2024-05-29 02:29:13,709] [main] testng.allow-missing = false [testng] [2024-05-29 02:29:13,710] [main] user.language = en [testng] [2024-05-29 02:29:13,710] [main] user.country = ${user.country} [testng] [2024-05-29 02:29:13,710] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-05-29 02:29:24,539] [main] ---------------------------------------- [testng] [2024-05-29 02:29:24,539] [main] Total files: 944 [testng] [2024-05-29 02:29:24,540] [main] Scan time: 10.829 s (11 ms/file) [testng] [2024-05-29 02:29:24,540] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 15 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-05-29 02:29:54,726] [pool-1-thread-1] Initializing /data/brian/Series002_z01.tif: [testng] 02:29:54,726 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:29:54,726 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:29:54,727 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-05-29_02-29-54.log] [testng] 02:29:54,728 |-INFO in ch.qos.logback.core.sift.SiftProcessor@22f12b6 - End of configuration. [testng] [2024-05-29 02:29:54,798] [pool-1-thread-12] Initializing /data/stjude/AntoDayzerocy3OVP.tif: [testng] 02:29:54,799 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:29:54,799 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:29:54,799 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-05-29_02-29-54.log] [testng] 02:29:54,800 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6c5b9c75 - End of configuration. [testng] [2024-05-29 02:29:54,851] [pool-1-thread-11] Initializing /data/stjude/Antoday1dblmysglGRP.tif: [testng] 02:29:54,851 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:29:54,851 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:29:54,852 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-05-29_02-29-54.log] [testng] 02:29:54,853 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3a381df0 - End of configuration. [testng] [2024-05-29 02:29:54,898] [pool-1-thread-10] Initializing /data/stjude/AntoDay1cy3/c01f0001.TIF: [testng] 02:29:54,898 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:29:54,898 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:29:54,899 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-05-29_02-29-54.log] [testng] 02:29:54,899 |-INFO in ch.qos.logback.core.sift.SiftProcessor@553d5312 - End of configuration. [testng] [2024-05-29 02:29:54,948] [pool-1-thread-9] Initializing /data/primate/Leica_Image.tif: [testng] 02:29:54,948 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:29:54,948 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:29:54,949 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-05-29_02-29-54.log] [testng] 02:29:54,949 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7d7b382a - End of configuration. [testng] [2024-05-29 02:29:55,002] [pool-1-thread-8] Initializing /data/stjude/Antoday1dblcat2dataGRP.tif: [testng] 02:29:55,002 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:29:55,002 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:29:55,003 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-05-29_02-29-55.log] [testng] 02:29:55,003 |-INFO in ch.qos.logback.core.sift.SiftProcessor@47bfbaa8 - End of configuration. [testng] [2024-05-29 02:29:55,034] [pool-1-thread-7] Initializing /data/brian/Series002_z00_ch00.tif: [testng] 02:29:55,034 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:29:55,035 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:29:55,035 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-05-29_02-29-55.log] [testng] 02:29:55,036 |-INFO in ch.qos.logback.core.sift.SiftProcessor@362a0c31 - End of configuration. [testng] [2024-05-29 02:29:55,090] [pool-1-thread-6] Initializing /data/stjude/AntoDayzerocy3GRP.tif: [testng] 02:29:55,090 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:29:55,090 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:29:55,091 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-05-29_02-29-55.log] [testng] 02:29:55,091 |-INFO in ch.qos.logback.core.sift.SiftProcessor@59198ba9 - End of configuration. [testng] [2024-05-29 02:29:55,145] [pool-1-thread-5] Initializing /data/stjude/AntoDay4dblmyGRP.tif: [testng] 02:29:55,145 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:29:55,145 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:29:55,146 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-05-29_02-29-55.log] [testng] 02:29:55,146 |-INFO in ch.qos.logback.core.sift.SiftProcessor@11bb4551 - End of configuration. [testng] [2024-05-29 02:29:55,174] [pool-1-thread-4] Initializing /data/dave/series 35/042911_Series035_t00_z000_ch00.tif: [testng] 02:29:55,175 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:29:55,175 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:29:55,175 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-05-29_02-29-55.log] [testng] 02:29:55,176 |-INFO in ch.qos.logback.core.sift.SiftProcessor@50ddf602 - End of configuration. [testng] [2024-05-29 02:30:00,271] [pool-1-thread-3] Initializing /data/stjude/AntoDay4dblcatdataGRP.tif: [testng] 02:30:00,272 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:30:00,272 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:30:00,273 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-05-29_02-30-00.log] [testng] 02:30:00,273 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3965c4cc - End of configuration. [testng] [2024-05-29 02:30:00,322] [pool-1-thread-2] Initializing /data/martin/Series028_z00_ch00.tif: [testng] 02:30:00,322 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:30:00,322 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:30:00,323 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-05-29_02-30-00.log] [testng] 02:30:00,323 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2eaf757a - End of configuration. [testng] [2024-05-29 02:30:03,660] [pool-1-thread-8] Initializing /data/stjude/AntoDay1dblGRP.tif: [testng] [2024-05-29 02:30:03,697] [pool-1-thread-2] Initializing /data/stjude/Antoday1dblcatsglGRP.tif: [testng] [2024-05-29 02:30:03,751] [pool-1-thread-1] Initializing /data/stjude/AntoDay4dblmy2GRP.tif: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 795, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 10 minutes 7 seconds Finished: SUCCESS