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Started by upstream project "BIOFORMATS-test-repo" build number 206 originally caused by: Started by upstream project "Trigger" build number 232 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@7 [BIOFORMATS-test-folder@7] $ /bin/bash -xe /tmp/jenkins4454115416007117497.sh + '[' imagepro = slidebook ']' ++ date +%u + '[' 2 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_32774_merge_ci -v /uod/idr/repos/curated/imagepro:/data -v /uod/idr-scratch/merge-ci/curated/imagepro:/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] WARNING: An illegal reflective access operation has occurred [testng] WARNING: Illegal reflective access by org.kohsuke.file_leak_detector.Listener (file:/home/build/.m2/repository/org/kohsuke/file-leak-detector/1.18/file-leak-detector-1.18-jar-with-dependencies.jar) to field java.net.SocketImpl.socket [testng] WARNING: Please consider reporting this to the maintainers of org.kohsuke.file_leak_detector.Listener [testng] WARNING: Use --illegal-access=warn to enable warnings of further illegal reflective access operations [testng] WARNING: All illegal access operations will be denied in a future release [testng] File leak detector installed [testng] 04:41:37,352 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 04:41:37,353 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - No custom configurators were discovered as a service. [testng] 04:41:37,353 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 04:41:37,354 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 04:41:37,355 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 04:41:37,355 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 04:41:37,356 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 2 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 04:41:37,356 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 04:41:37,356 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 04:41:37,357 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 04:41:37,357 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 04:41:37,357 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 04:41:37,529 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 04:41:37,529 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 04:41:37,552 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 04:41:37,552 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 04:41:37,558 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 04:41:37,558 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 04:41:37,558 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 04:41:37,559 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 04:41:37,559 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2794eab6 - End of configuration. [testng] 04:41:37,559 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6c1a5b54 - Registering current configuration as safe fallback point [testng] 04:41:37,559 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 203 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-10-01 04:41:37,568] [main] java.version = 11.0.16 [testng] 04:41:37,572 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 04:41:37,572 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:41:37,614 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-01_04-41-37.log] [testng] 04:41:37,616 |-INFO in ch.qos.logback.core.sift.SiftProcessor@642a7222 - End of configuration. [testng] [2024-10-01 04:41:37,618] [main] testng.directory = /data [testng] [2024-10-01 04:41:37,618] [main] testng.configDirectory = /config [testng] [2024-10-01 04:41:37,628] [main] testng.multiplier = 1.0 [testng] [2024-10-01 04:41:37,629] [main] testng.in-memory = false [testng] [2024-10-01 04:41:37,630] [main] testng.allow-missing = false [testng] [2024-10-01 04:41:37,630] [main] user.language = en [testng] [2024-10-01 04:41:37,630] [main] user.country = ${user.country} [testng] [2024-10-01 04:41:37,630] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-10-01 04:41:41,238] [main] ---------------------------------------- [testng] [2024-10-01 04:41:41,238] [main] Total files: 22 [testng] [2024-10-01 04:41:41,238] [main] Scan time: 3.608 s (164 ms/file) [testng] [2024-10-01 04:41:41,238] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 21 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-10-01 04:41:54,106] [pool-1-thread-1] Initializing /data/converted/dub01.pic: [testng] 04:41:54,107 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 04:41:54,108 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:41:54,109 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-01_04-41-54.log] [testng] 04:41:54,110 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5b52701b - End of configuration. [testng] [2024-10-01 04:41:54,368] [pool-1-thread-12] Initializing /data/converted/clown8c.tif: [testng] 04:41:54,369 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 04:41:54,369 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:41:54,370 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-10-01_04-41-54.log] [testng] 04:41:54,370 |-INFO in ch.qos.logback.core.sift.SiftProcessor@35503e90 - End of configuration. [testng] [2024-10-01 04:41:55,002] [pool-1-thread-11] Initializing /data/converted/clown.ipw: [testng] 04:41:55,003 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 04:41:55,003 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:41:55,003 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-10-01_04-41-55.log] [testng] 04:41:55,004 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3e77f532 - End of configuration. [testng] [2024-10-01 04:41:55,242] [pool-1-thread-10] Initializing /data/samples/HEART.SEQ: [testng] 04:41:55,242 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 04:41:55,242 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:41:55,243 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-01_04-41-55.log] [testng] 04:41:55,243 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6fa03425 - End of configuration. [testng] [2024-10-01 04:41:55,518] [pool-1-thread-9] Initializing /data/converted/mitosis-test.ipw: [testng] 04:41:55,518 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 04:41:55,518 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:41:55,519 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-01_04-41-55.log] [testng] 04:41:55,519 |-INFO in ch.qos.logback.core.sift.SiftProcessor@56d0cb3c - End of configuration. [testng] [2024-10-01 04:41:55,793] [pool-1-thread-8] Initializing /data/converted/dub01.seq: [testng] 04:41:55,793 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 04:41:55,793 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:41:55,794 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-01_04-41-55.log] [testng] 04:41:55,794 |-INFO in ch.qos.logback.core.sift.SiftProcessor@68b2cb6d - End of configuration. [testng] [2024-10-01 04:41:56,097] [pool-1-thread-7] Initializing /data/alex/AFAset0003.ips: [testng] 04:41:56,097 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 04:41:56,097 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:41:56,098 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-01_04-41-56.log] [testng] 04:41:56,099 |-INFO in ch.qos.logback.core.sift.SiftProcessor@14e0307b - End of configuration. [testng] [2024-10-01 04:41:56,360] [pool-1-thread-6] Initializing /data/converted/clown.tif: [testng] 04:41:56,360 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 04:41:56,360 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:41:56,361 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-01_04-41-56.log] [testng] 04:41:56,361 |-INFO in ch.qos.logback.core.sift.SiftProcessor@17be8144 - End of configuration. [testng] [2024-10-01 04:41:56,698] [pool-1-thread-5] Initializing /data/xiuwen/head2.seq: [testng] 04:41:56,698 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 04:41:56,699 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:41:56,699 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-01_04-41-56.log] [testng] 04:41:56,699 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4b43939a - End of configuration. [testng] [2024-10-01 04:41:57,103] [pool-1-thread-4] Initializing /data/converted/NESb_C2_TP7.ipw: [testng] 04:41:57,103 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 04:41:57,103 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:41:57,104 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-01_04-41-57.log] [testng] 04:41:57,104 |-INFO in ch.qos.logback.core.sift.SiftProcessor@60cb4eda - End of configuration. [testng] [2024-10-01 04:41:57,383] [pool-1-thread-3] Initializing /data/samples/FLDUAL.TIF: [testng] 04:41:57,384 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 04:41:57,384 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:41:57,385 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-01_04-41-57.log] [testng] 04:41:57,385 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6d72df82 - End of configuration. [testng] [2024-10-01 04:41:58,065] [pool-1-thread-2] Initializing /data/samples/TISSUE.TIF: [testng] 04:41:58,065 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 04:41:58,065 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:41:58,066 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-01_04-41-58.log] [testng] 04:41:58,066 |-INFO in ch.qos.logback.core.sift.SiftProcessor@190a1859 - End of configuration. [testng] [2024-10-01 04:42:01,958] [pool-1-thread-11] Initializing /data/converted/NESb_C2_TP7.seq: [testng] [2024-10-01 04:42:02,239] [pool-1-thread-9] Initializing /data/converted/clown8c.seq: [testng] [2024-10-01 04:42:02,515] [pool-1-thread-6] Initializing /data/samples/PROBE.TIF: [testng] [2024-10-01 04:42:02,813] [pool-1-thread-1] Initializing /data/converted/NESb_C2_TP7.tiff: [testng] [2024-10-01 04:42:03,590] [pool-1-thread-8] Initializing /data/converted/mitosis-test.seq: [testng] [2024-10-01 04:42:03,888] [pool-1-thread-10] Initializing /data/converted/dub01.ipw: [testng] [2024-10-01 04:42:04,197] [pool-1-thread-4] Initializing /data/converted/clown.seq: [testng] [2024-10-01 04:42:05,065] [pool-1-thread-12] Initializing /data/converted/mitosis-test.tif: [testng] [2024-10-01 04:42:06,492] [pool-1-thread-2] Initializing /data/converted/clown8c.ipw: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1113, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 1 minute 57 seconds Finished: SUCCESS