Started by upstream project "BIOFORMATS-test-repo" build number 241 originally caused by: Started by upstream project "Trigger" build number 266 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/jenkins12092565385900713559.sh + '[' zip = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_37862_merge_ci -v /uod/idr/repos/curated/zip:/data -v /uod/idr-scratch/merge-ci/curated/zip:/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] 00:27:42,458 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 00:27:42,460 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 00:27:42,460 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:27:42,461 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:27:42,462 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 00:27:42,462 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 00:27:42,462 |-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] 00:27:42,462 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:27:42,463 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:27:42,463 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 00:27:42,463 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 00:27:42,463 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 00:27:42,701 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 00:27:42,701 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 00:27:42,730 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 00:27:42,731 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 00:27:42,739 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 00:27:42,739 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 00:27:42,740 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 00:27:42,740 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 00:27:42,740 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 00:27:42,741 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 00:27:42,741 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 278 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-11-01 00:27:42,751] [main] java.version = 1.8.0_342 [testng] 00:27:42,755 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 00:27:42,755 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:27:42,802 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-01_00-27-42.log] [testng] 00:27:42,804 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2024-11-01 00:27:42,806] [main] testng.directory = /data [testng] [2024-11-01 00:27:42,806] [main] testng.configDirectory = /config [testng] [2024-11-01 00:27:42,819] [main] testng.multiplier = 1.0 [testng] [2024-11-01 00:27:42,819] [main] testng.in-memory = false [testng] [2024-11-01 00:27:42,819] [main] testng.allow-missing = false [testng] [2024-11-01 00:27:42,819] [main] user.language = en [testng] [2024-11-01 00:27:42,819] [main] user.country = ${user.country} [testng] [2024-11-01 00:27:42,819] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-11-01 00:27:43,454] [main] ---------------------------------------- [testng] [2024-11-01 00:27:43,454] [main] Total files: 22 [testng] [2024-11-01 00:27:43,454] [main] Scan time: 0.635 s (28 ms/file) [testng] [2024-11-01 00:27:43,454] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 22 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-11-01 00:29:36,856] [pool-1-thread-1] Initializing /data/samples/sdub.zip: [testng] 00:29:36,858 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 00:29:36,858 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:36,860 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-11-01_00-29-36.log] [testng] 00:29:36,860 |-INFO in ch.qos.logback.core.sift.SiftProcessor@221d7026 - End of configuration. [testng] [2024-11-01 00:29:38,424] [pool-1-thread-12] Initializing /data/imagej/mri-stack.zip: [testng] 00:29:38,424 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 00:29:38,424 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:38,425 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-11-01_00-29-38.log] [testng] 00:29:38,425 |-INFO in ch.qos.logback.core.sift.SiftProcessor@15959b54 - End of configuration. [testng] [2024-11-01 00:29:43,573] [pool-1-thread-11] Initializing /data/imagej/hela-cells.zip: [testng] 00:29:43,574 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 00:29:43,574 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:43,574 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-11-01_00-29-43.log] [testng] 00:29:43,575 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2d522528 - End of configuration. [testng] [2024-11-01 00:29:47,262] [pool-1-thread-10] Initializing /data/imagej/watershed-animation.zip: [testng] 00:29:47,262 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 00:29:47,262 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:47,263 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-11-01_00-29-47.log] [testng] 00:29:47,263 |-INFO in ch.qos.logback.core.sift.SiftProcessor@31aad20e - End of configuration. [testng] [2024-11-01 00:29:50,066] [pool-1-thread-9] Initializing /data/imagej/4D-Stack(256x256x20x10).zip: [testng] 00:29:50,067 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 00:29:50,067 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:50,067 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-11-01_00-29-50.log] [testng] 00:29:50,068 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4da8dba2 - End of configuration. [testng] [2024-11-01 00:30:01,811] [pool-1-thread-8] Initializing /data/imagej/gel-electrophoresis.zip: [testng] 00:30:01,811 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 00:30:01,812 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:01,812 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-11-01_00-30-01.log] [testng] 00:30:01,813 |-INFO in ch.qos.logback.core.sift.SiftProcessor@168d8eb6 - End of configuration. [testng] [2024-11-01 00:30:06,248] [pool-1-thread-7] Initializing /data/imagej/cheetah_256_8.tif.zip: [testng] 00:30:06,248 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 00:30:06,248 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:06,248 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-11-01_00-30-06.log] [testng] 00:30:06,249 |-INFO in ch.qos.logback.core.sift.SiftProcessor@141adb1 - End of configuration. [testng] [2024-11-01 00:30:09,503] [pool-1-thread-6] Initializing /data/imagej/xrays.zip: [testng] 00:30:09,503 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 00:30:09,503 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:09,503 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-11-01_00-30-09.log] [testng] 00:30:09,504 |-INFO in ch.qos.logback.core.sift.SiftProcessor@17c0f24d - End of configuration. [testng] [2024-11-01 00:30:11,514] [pool-1-thread-5] Initializing /data/imagej/confocal-stack.zip: [testng] 00:30:11,514 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 00:30:11,514 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:11,515 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-11-01_00-30-11.log] [testng] 00:30:11,515 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2c17928b - End of configuration. [testng] [2024-11-01 00:30:24,102] [pool-1-thread-4] Initializing /data/imagej/FluorescentCells.zip: [testng] 00:30:24,102 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 00:30:24,102 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:24,103 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-11-01_00-30-24.log] [testng] 00:30:24,104 |-INFO in ch.qos.logback.core.sift.SiftProcessor@40d68998 - End of configuration. [testng] [2024-11-01 00:30:26,509] [pool-1-thread-3] Initializing /data/imagej/fat-cells.zip: [testng] 00:30:26,510 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 00:30:26,510 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:26,510 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-11-01_00-30-26.log] [testng] 00:30:26,511 |-INFO in ch.qos.logback.core.sift.SiftProcessor@27114d31 - End of configuration. [testng] [2024-11-01 00:30:31,219] [pool-1-thread-2] Initializing /data/imagej/Rat_Hippocampal_Neuron2.zip: [testng] 00:30:31,219 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 00:30:31,219 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:31,220 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-11-01_00-30-31.log] [testng] 00:30:31,220 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5f478ee2 - End of configuration. [testng] [2024-11-01 00:30:48,033] [pool-1-thread-1] Initializing /data/imagej/se3.zip: [testng] [2024-11-01 00:31:00,513] [pool-1-thread-6] Initializing /data/imagej/RatBrain.zip: [testng] [2024-11-01 00:31:04,612] [pool-1-thread-10] Initializing /data/imagej/blood-brain-barrier.zip: [testng] [2024-11-01 00:31:16,377] [pool-1-thread-12] Initializing /data/imagej/Rat_Hippocampal_Neuron.zip: [testng] [2024-11-01 00:31:19,736] [pool-1-thread-4] Initializing /data/imagej/scala-media.zip: [testng] [2024-11-01 00:31:22,422] [pool-1-thread-7] Initializing /data/imagej/confocal-series.zip: [testng] [2024-11-01 00:31:39,888] [pool-1-thread-6] Initializing /data/imagej/3D_Chromosome.zip: [testng] [2024-11-01 00:31:42,020] [pool-1-thread-11] Initializing /data/imagej/flybrain.zip: [testng] [2024-11-01 00:31:52,752] [pool-1-thread-4] Initializing /data/imagej/m51.zip: [testng] [2024-11-01 00:31:56,611] [pool-1-thread-2] Initializing /data/samples/bat-cochlea-volume.zip: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1166, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 8 minutes 36 seconds Finished: SUCCESS