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Started by upstream project "BIOFORMATS-test-repo" build number 273 originally caused by: Started by user devspace Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@8 [BIOFORMATS-test-folder@8] $ /bin/bash -xe /tmp/jenkins7200200216207823019.sh + '[' imagepro = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_43117_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] 12:42:51,182 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 12:42:51,183 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 12:42:51,183 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 12:42:51,184 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 12:42:51,185 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 12:42:51,185 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 12:42:51,185 |-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] 12:42:51,185 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 12:42:51,185 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 12:42:51,186 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 12:42:51,186 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 12:42:51,186 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 12:42:51,402 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 12:42:51,402 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 12:42:51,430 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 12:42:51,430 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 12:42:51,437 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 12:42:51,437 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 12:42:51,437 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 12:42:51,438 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 12:42:51,438 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 12:42:51,439 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 12:42:51,439 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 254 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-11-29 12:42:51,448] [main] java.version = 1.8.0_342 [testng] 12:42:51,452 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 12:42:51,452 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:42:51,495 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-29_12-42-51.log] [testng] 12:42:51,496 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2024-11-29 12:42:51,498] [main] testng.directory = /data [testng] [2024-11-29 12:42:51,498] [main] testng.configDirectory = /config [testng] [2024-11-29 12:42:51,509] [main] testng.multiplier = 1.0 [testng] [2024-11-29 12:42:51,510] [main] testng.in-memory = false [testng] [2024-11-29 12:42:51,510] [main] testng.allow-missing = false [testng] [2024-11-29 12:42:51,510] [main] user.language = en [testng] [2024-11-29 12:42:51,510] [main] user.country = ${user.country} [testng] [2024-11-29 12:42:51,510] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-11-29 12:42:55,849] [main] ---------------------------------------- [testng] [2024-11-29 12:42:55,849] [main] Total files: 22 [testng] [2024-11-29 12:42:55,849] [main] Scan time: 4.339 s (197 ms/file) [testng] [2024-11-29 12:42:55,849] [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 12:43:14,955] [pool-1-thread-1] Initializing /data/converted/NESb_C2_TP7.seq: [testng] 12:43:14,956 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 12:43:14,956 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:43:14,957 |-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_12-43-14.log] [testng] 12:43:14,957 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4961b848 - End of configuration. [testng] [2024-11-29 12:43:15,427] [pool-1-thread-12] Initializing /data/converted/clown8c.tif: [testng] 12:43:15,427 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 12:43:15,427 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:43:15,428 |-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_12-43-15.log] [testng] 12:43:15,428 |-INFO in ch.qos.logback.core.sift.SiftProcessor@b66d06f - End of configuration. [testng] [2024-11-29 12:43:16,576] [pool-1-thread-11] Initializing /data/samples/TISSUE.TIF: [testng] 12:43:16,577 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 12:43:16,577 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:43:16,577 |-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_12-43-16.log] [testng] 12:43:16,578 |-INFO in ch.qos.logback.core.sift.SiftProcessor@270f0323 - End of configuration. [testng] [2024-11-29 12:43:17,716] [pool-1-thread-10] Initializing /data/converted/dub01.seq: [testng] 12:43:17,716 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 12:43:17,716 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:43:17,717 |-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_12-43-17.log] [testng] 12:43:17,717 |-INFO in ch.qos.logback.core.sift.SiftProcessor@434b4bc1 - End of configuration. [testng] [2024-11-29 12:43:18,180] [pool-1-thread-9] Initializing /data/xiuwen/head2.seq: [testng] 12:43:18,180 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 12:43:18,180 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:43:18,182 |-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_12-43-18.log] [testng] 12:43:18,182 |-INFO in ch.qos.logback.core.sift.SiftProcessor@d276bdf - End of configuration. [testng] [2024-11-29 12:43:18,732] [pool-1-thread-8] Initializing /data/samples/PROBE.TIF: [testng] 12:43:18,732 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 12:43:18,732 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:43:18,733 |-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_12-43-18.log] [testng] 12:43:18,733 |-INFO in ch.qos.logback.core.sift.SiftProcessor@c17539f - End of configuration. [testng] [2024-11-29 12:43:19,226] [pool-1-thread-7] Initializing /data/converted/clown.ipw: [testng] 12:43:19,226 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 12:43:19,226 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:43:19,227 |-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_12-43-19.log] [testng] 12:43:19,227 |-INFO in ch.qos.logback.core.sift.SiftProcessor@40ce7006 - End of configuration. [testng] [2024-11-29 12:43:19,700] [pool-1-thread-6] Initializing /data/samples/HEART.SEQ: [testng] 12:43:19,701 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 12:43:19,701 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:43:19,701 |-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_12-43-19.log] [testng] 12:43:19,702 |-INFO in ch.qos.logback.core.sift.SiftProcessor@74720ca5 - End of configuration. [testng] [2024-11-29 12:43:20,149] [pool-1-thread-5] Initializing /data/converted/mitosis-test.seq: [testng] 12:43:20,149 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 12:43:20,149 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:43:20,150 |-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_12-43-20.log] [testng] 12:43:20,150 |-INFO in ch.qos.logback.core.sift.SiftProcessor@20c81910 - End of configuration. [testng] [2024-11-29 12:43:20,633] [pool-1-thread-4] Initializing /data/converted/NESb_C2_TP7.ipw: [testng] 12:43:20,634 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 12:43:20,634 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:43:20,635 |-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_12-43-20.log] [testng] 12:43:20,635 |-INFO in ch.qos.logback.core.sift.SiftProcessor@fca4b36 - End of configuration. [testng] [2024-11-29 12:43:21,096] [pool-1-thread-3] Initializing /data/converted/mitosis-test.tif: [testng] 12:43:21,097 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 12:43:21,097 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:43:21,097 |-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_12-43-21.log] [testng] 12:43:21,098 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4753aee6 - End of configuration. [testng] [2024-11-29 12:43:22,362] [pool-1-thread-2] Initializing /data/converted/clown.tif: [testng] 12:43:22,363 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 12:43:22,363 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:43:22,363 |-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_12-43-22.log] [testng] 12:43:22,364 |-INFO in ch.qos.logback.core.sift.SiftProcessor@8ee8293 - End of configuration. [testng] [2024-11-29 12:43:28,740] [pool-1-thread-7] Initializing /data/converted/clown.seq: [testng] [2024-11-29 12:43:29,256] [pool-1-thread-2] Initializing /data/converted/clown8c.seq: [testng] [2024-11-29 12:43:29,762] [pool-1-thread-5] Initializing /data/converted/dub01.ipw: [testng] [2024-11-29 12:43:30,228] [pool-1-thread-8] Initializing /data/alex/AFAset0003.ips: [testng] [2024-11-29 12:43:30,711] [pool-1-thread-6] Initializing /data/converted/dub01.pic: [testng] [2024-11-29 12:43:31,165] [pool-1-thread-10] Initializing /data/converted/clown8c.ipw: [testng] [2024-11-29 12:43:31,594] [pool-1-thread-4] Initializing /data/converted/NESb_C2_TP7.tiff: [testng] [2024-11-29 12:43:32,751] [pool-1-thread-1] Initializing /data/converted/mitosis-test.ipw: [testng] [2024-11-29 12:43:35,358] [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: 3 minutes 22 seconds Finished: SUCCESS