Started by upstream project "BIOFORMATS-test-repo" build number 272 originally caused by: Started by upstream project "Trigger" build number 294 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@4 [BIOFORMATS-test-folder@4] $ /bin/bash -xe /tmp/jenkins6387105714630892799.sh + '[' imagepro = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_42953_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] 04:13:47,427 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 04:13:47,429 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 04:13:47,430 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 04:13:47,431 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 04:13:47,431 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 04:13:47,431 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 04:13:47,432 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 04:13:47,432 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 04:13:47,432 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 04:13:47,433 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 04:13:47,433 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 04:13:47,433 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 04:13:47,700 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 04:13:47,700 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 04:13:47,734 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 04:13:47,734 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 04:13:47,745 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 04:13:47,745 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 04:13:47,745 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 04:13:47,746 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 04:13:47,746 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 04:13:47,747 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 04:13:47,747 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 315 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-11-29 04:13:47,759] [main] java.version = 1.8.0_342 [testng] 04:13:47,764 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 04:13:47,764 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:13:47,819 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-29_04-13-47.log] [testng] 04:13:47,822 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2024-11-29 04:13:47,825] [main] testng.directory = /data [testng] [2024-11-29 04:13:47,825] [main] testng.configDirectory = /config [testng] [2024-11-29 04:13:47,840] [main] testng.multiplier = 1.0 [testng] [2024-11-29 04:13:47,841] [main] testng.in-memory = false [testng] [2024-11-29 04:13:47,841] [main] testng.allow-missing = false [testng] [2024-11-29 04:13:47,841] [main] user.language = en [testng] [2024-11-29 04:13:47,841] [main] user.country = ${user.country} [testng] [2024-11-29 04:13:47,841] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-11-29 04:13:52,962] [main] ---------------------------------------- [testng] [2024-11-29 04:13:52,962] [main] Total files: 22 [testng] [2024-11-29 04:13:52,962] [main] Scan time: 5.121 s (232 ms/file) [testng] [2024-11-29 04:13:52,962] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 21 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-11-29 04:14:09,287] [pool-1-thread-1] Initializing /data/converted/NESb_C2_TP7.seq: [testng] 04:14:09,288 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 04:14:09,288 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:14:09,289 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-11-29_04-14-09.log] [testng] 04:14:09,289 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2ab83d57 - End of configuration. [testng] [2024-11-29 04:14:09,800] [pool-1-thread-12] Initializing /data/converted/clown8c.tif: [testng] 04:14:09,800 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 04:14:09,800 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:14:09,801 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-11-29_04-14-09.log] [testng] 04:14:09,801 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7fd0dc26 - End of configuration. [testng] [2024-11-29 04:14:11,054] [pool-1-thread-11] Initializing /data/samples/TISSUE.TIF: [testng] 04:14:11,054 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 04:14:11,054 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:14:11,055 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-11-29_04-14-11.log] [testng] 04:14:11,055 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1e5d4bdc - End of configuration. [testng] [2024-11-29 04:14:12,219] [pool-1-thread-10] Initializing /data/converted/dub01.seq: [testng] 04:14:12,219 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 04:14:12,219 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:14:12,220 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-11-29_04-14-12.log] [testng] 04:14:12,220 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3e62f409 - End of configuration. [testng] [2024-11-29 04:14:12,707] [pool-1-thread-9] Initializing /data/xiuwen/head2.seq: [testng] 04:14:12,707 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 04:14:12,707 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:14:12,708 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-11-29_04-14-12.log] [testng] 04:14:12,708 |-INFO in ch.qos.logback.core.sift.SiftProcessor@69beb11f - End of configuration. [testng] [2024-11-29 04:14:13,301] [pool-1-thread-8] Initializing /data/samples/PROBE.TIF: [testng] 04:14:13,302 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 04:14:13,302 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:14:13,303 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-11-29_04-14-13.log] [testng] 04:14:13,303 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2c6bd42c - End of configuration. [testng] [2024-11-29 04:14:13,877] [pool-1-thread-7] Initializing /data/converted/clown.ipw: [testng] 04:14:13,878 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 04:14:13,878 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:14:13,878 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-11-29_04-14-13.log] [testng] 04:14:13,879 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3dee9026 - End of configuration. [testng] [2024-11-29 04:14:14,382] [pool-1-thread-6] Initializing /data/samples/HEART.SEQ: [testng] 04:14:14,383 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 04:14:14,383 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:14:14,384 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-11-29_04-14-14.log] [testng] 04:14:14,385 |-INFO in ch.qos.logback.core.sift.SiftProcessor@270f0323 - End of configuration. [testng] [2024-11-29 04:14:14,759] [pool-1-thread-5] Initializing /data/converted/mitosis-test.seq: [testng] 04:14:14,759 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 04:14:14,760 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:14:14,760 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-11-29_04-14-14.log] [testng] 04:14:14,761 |-INFO in ch.qos.logback.core.sift.SiftProcessor@434b4bc1 - End of configuration. [testng] [2024-11-29 04:14:15,219] [pool-1-thread-4] Initializing /data/converted/NESb_C2_TP7.ipw: [testng] 04:14:15,219 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 04:14:15,219 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:14:15,220 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-11-29_04-14-15.log] [testng] 04:14:15,220 |-INFO in ch.qos.logback.core.sift.SiftProcessor@c17539f - End of configuration. [testng] [2024-11-29 04:14:15,643] [pool-1-thread-3] Initializing /data/converted/mitosis-test.tif: [testng] 04:14:15,643 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 04:14:15,643 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:14:15,644 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-11-29_04-14-15.log] [testng] 04:14:15,644 |-INFO in ch.qos.logback.core.sift.SiftProcessor@fca4b36 - End of configuration. [testng] [2024-11-29 04:14:16,531] [pool-1-thread-2] Initializing /data/converted/clown.tif: [testng] 04:14:16,531 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 04:14:16,531 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:14:16,532 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-11-29_04-14-16.log] [testng] 04:14:16,533 |-INFO in ch.qos.logback.core.sift.SiftProcessor@78b460 - End of configuration. [testng] [2024-11-29 04:14:21,919] [pool-1-thread-7] Initializing /data/converted/clown.seq: [testng] [2024-11-29 04:14:22,288] [pool-1-thread-2] Initializing /data/converted/clown8c.seq: [testng] [2024-11-29 04:14:22,673] [pool-1-thread-5] Initializing /data/converted/dub01.ipw: [testng] [2024-11-29 04:14:23,135] [pool-1-thread-8] Initializing /data/alex/AFAset0003.ips: [testng] [2024-11-29 04:14:23,630] [pool-1-thread-6] Initializing /data/converted/dub01.pic: [testng] [2024-11-29 04:14:24,100] [pool-1-thread-10] Initializing /data/converted/clown8c.ipw: [testng] [2024-11-29 04:14:24,535] [pool-1-thread-4] Initializing /data/converted/NESb_C2_TP7.tiff: [testng] [2024-11-29 04:14:25,468] [pool-1-thread-1] Initializing /data/converted/mitosis-test.ipw: [testng] [2024-11-29 04:14:27,319] [pool-1-thread-12] Initializing /data/samples/FLDUAL.TIF: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1113, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 2 minutes 49 seconds Finished: SUCCESS