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Started by upstream project "BIOFORMATS-test-repo" build number 202 originally caused by: Started by upstream project "Trigger" build number 228 originally caused by: Started by user devspace Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@6 [BIOFORMATS-test-folder@6] $ /bin/bash -xe /tmp/jenkins15235406685647862434.sh + '[' imagepro = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_32118_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 test-automated: [testng] File leak detector installed [testng] 09:19:07,233 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 09:19:07,235 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service. [testng] 09:19:07,235 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 09:19:07,236 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 09:19:07,236 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 09:19:07,236 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 09:19:07,237 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 09:19:07,237 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 09:19:07,237 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 09:19:07,237 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 09:19:07,237 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 09:19:07,238 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 09:19:07,451 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 09:19:07,451 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 09:19:07,477 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 09:19:07,477 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 09:19:07,485 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 09:19:07,485 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 09:19:07,485 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 09:19:07,486 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 09:19:07,486 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 09:19:07,487 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 09:19:07,487 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 250 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-09-27 09:19:07,496] [main] java.version = 1.8.0_342 [testng] 09:19:07,500 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 09:19:07,500 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:19:07,544 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-09-27_09-19-07.log] [testng] 09:19:07,545 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-09-27 09:19:07,547] [main] testng.directory = /data [testng] [2024-09-27 09:19:07,547] [main] testng.configDirectory = /config [testng] [2024-09-27 09:19:07,559] [main] testng.multiplier = 1.0 [testng] [2024-09-27 09:19:07,559] [main] testng.in-memory = false [testng] [2024-09-27 09:19:07,559] [main] testng.allow-missing = false [testng] [2024-09-27 09:19:07,559] [main] user.language = en [testng] [2024-09-27 09:19:07,560] [main] user.country = ${user.country} [testng] [2024-09-27 09:19:07,560] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-09-27 09:19:11,552] [main] ---------------------------------------- [testng] [2024-09-27 09:19:11,553] [main] Total files: 22 [testng] [2024-09-27 09:19:11,553] [main] Scan time: 3.992 s (181 ms/file) [testng] [2024-09-27 09:19:11,553] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 21 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-09-27 09:19:30,061] [pool-1-thread-1] Initializing /data/converted/mitosis-test.seq: [testng] 09:19:30,061 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 09:19:30,061 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:19:30,062 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-09-27_09-19-30.log] [testng] 09:19:30,062 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5176f457 - End of configuration. [testng] [2024-09-27 09:19:30,542] [pool-1-thread-12] Initializing /data/alex/AFAset0003.ips: [testng] 09:19:30,542 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 09:19:30,542 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:19:30,543 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-09-27_09-19-30.log] [testng] 09:19:30,543 |-INFO in ch.qos.logback.core.sift.SiftProcessor@71d3f453 - End of configuration. [testng] [2024-09-27 09:19:31,303] [pool-1-thread-11] Initializing /data/converted/clown.seq: [testng] 09:19:31,303 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 09:19:31,303 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:19:31,304 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-09-27_09-19-31.log] [testng] 09:19:31,305 |-INFO in ch.qos.logback.core.sift.SiftProcessor@606d2c0d - End of configuration. [testng] [2024-09-27 09:19:32,008] [pool-1-thread-10] Initializing /data/converted/dub01.pic: [testng] 09:19:32,008 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 09:19:32,008 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:19:32,009 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-09-27_09-19-32.log] [testng] 09:19:32,010 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5a379eb9 - End of configuration. [testng] [2024-09-27 09:19:32,584] [pool-1-thread-9] Initializing /data/converted/clown.tif: [testng] 09:19:32,584 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 09:19:32,584 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:19:32,585 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-09-27_09-19-32.log] [testng] 09:19:32,585 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1a63f653 - End of configuration. [testng] [2024-09-27 09:19:33,027] [pool-1-thread-8] Initializing /data/converted/clown8c.tif: [testng] 09:19:33,028 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 09:19:33,028 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:19:33,029 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-09-27_09-19-33.log] [testng] 09:19:33,029 |-INFO in ch.qos.logback.core.sift.SiftProcessor@215dd73a - End of configuration. [testng] [2024-09-27 09:19:34,241] [pool-1-thread-7] Initializing /data/converted/NESb_C2_TP7.ipw: [testng] 09:19:34,241 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 09:19:34,241 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:19:34,242 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-09-27_09-19-34.log] [testng] 09:19:34,242 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6d6a9bd1 - End of configuration. [testng] [2024-09-27 09:19:34,696] [pool-1-thread-6] Initializing /data/samples/FLDUAL.TIF: [testng] 09:19:34,696 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 09:19:34,696 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:19:34,697 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-09-27_09-19-34.log] [testng] 09:19:34,698 |-INFO in ch.qos.logback.core.sift.SiftProcessor@60dce90e - End of configuration. [testng] [2024-09-27 09:19:35,721] [pool-1-thread-5] Initializing /data/converted/clown8c.ipw: [testng] 09:19:35,721 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 09:19:35,721 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:19:35,722 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-09-27_09-19-35.log] [testng] 09:19:35,723 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4243b70b - End of configuration. [testng] [2024-09-27 09:19:36,147] [pool-1-thread-4] Initializing /data/converted/mitosis-test.ipw: [testng] 09:19:36,147 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 09:19:36,147 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:19:36,148 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-09-27_09-19-36.log] [testng] 09:19:36,148 |-INFO in ch.qos.logback.core.sift.SiftProcessor@56a65593 - End of configuration. [testng] [2024-09-27 09:19:36,548] [pool-1-thread-3] Initializing /data/samples/PROBE.TIF: [testng] 09:19:36,548 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 09:19:36,548 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:19:36,549 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-09-27_09-19-36.log] [testng] 09:19:36,549 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4a77b19b - End of configuration. [testng] [2024-09-27 09:19:36,971] [pool-1-thread-2] Initializing /data/converted/clown.ipw: [testng] 09:19:36,971 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 09:19:36,971 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:19:36,972 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-09-27_09-19-36.log] [testng] 09:19:36,972 |-INFO in ch.qos.logback.core.sift.SiftProcessor@43a82b04 - End of configuration. [testng] [2024-09-27 09:19:41,801] [pool-1-thread-9] Initializing /data/converted/NESb_C2_TP7.tiff: [testng] [2024-09-27 09:19:43,150] [pool-1-thread-2] Initializing /data/xiuwen/head2.seq: [testng] [2024-09-27 09:19:43,743] [pool-1-thread-4] Initializing /data/converted/dub01.seq: [testng] [2024-09-27 09:19:44,239] [pool-1-thread-11] Initializing /data/converted/dub01.ipw: [testng] [2024-09-27 09:19:45,157] [pool-1-thread-5] Initializing /data/samples/TISSUE.TIF: [testng] [2024-09-27 09:19:46,328] [pool-1-thread-10] Initializing /data/converted/mitosis-test.tif: [testng] [2024-09-27 09:19:47,676] [pool-1-thread-3] Initializing /data/samples/HEART.SEQ: [testng] [2024-09-27 09:19:48,110] [pool-1-thread-1] Initializing /data/converted/clown8c.seq: [testng] [2024-09-27 09:19:48,515] [pool-1-thread-7] Initializing /data/converted/NESb_C2_TP7.seq: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1113, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 3 minutes 11 seconds Finished: SUCCESS