Started by upstream project "BIOFORMATS-test-repo" build number 73 originally caused by: Started by upstream project "Trigger" build number 81 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@5 [BIOFORMATS-test-folder@5] $ /bin/bash -xe /tmp/jenkins14103570445312687442.sh + '[' zip = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_10983_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] 01:22:41,380 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 01:22:41,382 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service. [testng] 01:22:41,382 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:22:41,384 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:22:41,384 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:22:41,384 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:22:41,384 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 0 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 01:22:41,384 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:22:41,385 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:22:41,385 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:22:41,385 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:22:41,386 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:22:41,694 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:22:41,694 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:22:41,729 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:22:41,730 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:22:41,744 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:22:41,745 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:22:41,745 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:22:41,746 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:22:41,746 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 01:22:41,748 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 01:22:41,748 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 363 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-05-24 01:22:41,763] [main] java.version = 1.8.0_342 [testng] 01:22:41,769 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:22:41,769 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:22:41,838 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-05-24_01-22-41.log] [testng] 01:22:41,840 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-05-24 01:22:41,843] [main] testng.directory = /data [testng] [2024-05-24 01:22:41,843] [main] testng.configDirectory = /config [testng] [2024-05-24 01:22:41,856] [main] testng.multiplier = 1.0 [testng] [2024-05-24 01:22:41,856] [main] testng.in-memory = false [testng] [2024-05-24 01:22:41,856] [main] testng.allow-missing = false [testng] [2024-05-24 01:22:41,856] [main] user.language = en [testng] [2024-05-24 01:22:41,856] [main] user.country = ${user.country} [testng] [2024-05-24 01:22:41,857] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-05-24 01:22:42,299] [main] ---------------------------------------- [testng] [2024-05-24 01:22:42,299] [main] Total files: 22 [testng] [2024-05-24 01:22:42,299] [main] Scan time: 0.442 s (20 ms/file) [testng] [2024-05-24 01:22:42,299] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 22 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-05-24 01:23:31,836] [pool-1-thread-1] Initializing /data/imagej/3D_Chromosome.zip: [testng] 01:23:31,836 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:23:31,837 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:31,838 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-05-24_01-23-31.log] [testng] 01:23:31,839 |-INFO in ch.qos.logback.core.sift.SiftProcessor@74679cce - End of configuration. [testng] [2024-05-24 01:23:32,217] [pool-1-thread-12] Initializing /data/imagej/watershed-animation.zip: [testng] 01:23:32,217 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:23:32,217 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:32,218 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-05-24_01-23-32.log] [testng] 01:23:32,219 |-INFO in ch.qos.logback.core.sift.SiftProcessor@50473109 - End of configuration. [testng] [2024-05-24 01:23:32,351] [pool-1-thread-11] Initializing /data/imagej/scala-media.zip: [testng] 01:23:32,351 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:23:32,351 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:32,352 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-05-24_01-23-32.log] [testng] 01:23:32,353 |-INFO in ch.qos.logback.core.sift.SiftProcessor@764d314d - End of configuration. [testng] [2024-05-24 01:23:32,446] [pool-1-thread-10] Initializing /data/imagej/cheetah_256_8.tif.zip: [testng] 01:23:32,447 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:23:32,447 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:32,448 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-05-24_01-23-32.log] [testng] 01:23:32,448 |-INFO in ch.qos.logback.core.sift.SiftProcessor@9dc693 - End of configuration. [testng] [2024-05-24 01:23:32,632] [pool-1-thread-9] Initializing /data/imagej/mri-stack.zip: [testng] 01:23:32,632 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:23:32,632 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:32,633 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-05-24_01-23-32.log] [testng] 01:23:32,633 |-INFO in ch.qos.logback.core.sift.SiftProcessor@255777b4 - End of configuration. [testng] [2024-05-24 01:23:32,852] [pool-1-thread-8] Initializing /data/imagej/blood-brain-barrier.zip: [testng] 01:23:32,852 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:23:32,852 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:32,853 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-05-24_01-23-32.log] [testng] 01:23:32,853 |-INFO in ch.qos.logback.core.sift.SiftProcessor@75c702db - End of configuration. [testng] [2024-05-24 01:23:37,939] [pool-1-thread-7] Initializing /data/imagej/Rat_Hippocampal_Neuron.zip: [testng] 01:23:37,940 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:23:37,940 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:37,941 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-05-24_01-23-37.log] [testng] 01:23:37,942 |-INFO in ch.qos.logback.core.sift.SiftProcessor@19c6ddcc - End of configuration. [testng] [2024-05-24 01:23:39,041] [pool-1-thread-6] Initializing /data/imagej/m51.zip: [testng] 01:23:39,041 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:23:39,041 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:39,042 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-05-24_01-23-39.log] [testng] 01:23:39,043 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5b31892 - End of configuration. [testng] [2024-05-24 01:23:39,149] [pool-1-thread-5] Initializing /data/imagej/se3.zip: [testng] 01:23:39,149 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:23:39,149 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:39,150 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-05-24_01-23-39.log] [testng] 01:23:39,150 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5507d6ff - End of configuration. [testng] [2024-05-24 01:23:43,146] [pool-1-thread-4] Initializing /data/imagej/hela-cells.zip: [testng] 01:23:43,147 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:23:43,147 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:43,147 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-05-24_01-23-43.log] [testng] 01:23:43,148 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6ce80d3f - End of configuration. [testng] [2024-05-24 01:23:43,913] [pool-1-thread-3] Initializing /data/imagej/FluorescentCells.zip: [testng] 01:23:43,913 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:23:43,913 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:43,914 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-05-24_01-23-43.log] [testng] 01:23:43,914 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3a855d09 - End of configuration. [testng] [2024-05-24 01:23:44,100] [pool-1-thread-2] Initializing /data/imagej/4D-Stack(256x256x20x10).zip: [testng] 01:23:44,100 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:23:44,100 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:44,101 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-05-24_01-23-44.log] [testng] 01:23:44,101 |-INFO in ch.qos.logback.core.sift.SiftProcessor@30b9b5d3 - End of configuration. [testng] [2024-05-24 01:23:52,766] [pool-1-thread-11] Initializing /data/samples/sdub.zip: [testng] [2024-05-24 01:23:53,233] [pool-1-thread-12] Initializing /data/imagej/confocal-stack.zip: [testng] [2024-05-24 01:24:00,925] [pool-1-thread-6] Initializing /data/imagej/gel-electrophoresis.zip: [testng] [2024-05-24 01:24:02,665] [pool-1-thread-10] Initializing /data/samples/bat-cochlea-volume.zip: [testng] [2024-05-24 01:24:04,500] [pool-1-thread-3] Initializing /data/imagej/RatBrain.zip: [testng] [2024-05-24 01:24:06,055] [pool-1-thread-9] Initializing /data/imagej/fat-cells.zip: [testng] [2024-05-24 01:24:09,917] [pool-1-thread-1] Initializing /data/imagej/flybrain.zip: [testng] [2024-05-24 01:24:17,057] [pool-1-thread-3] Initializing /data/imagej/xrays.zip: [testng] [2024-05-24 01:24:18,498] [pool-1-thread-3] Initializing /data/imagej/Rat_Hippocampal_Neuron2.zip: [testng] [2024-05-24 01:24:19,911] [pool-1-thread-11] Initializing /data/imagej/confocal-series.zip: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1166, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 7 minutes 24 seconds Finished: SUCCESS