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Started by upstream project "BIOFORMATS-test-repo" build number 23 originally caused by: Started by upstream project "Trigger" build number 26 originally caused by: Started by timer 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/jenkins2452188739953905351.sh + '[' zip = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_2782_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] 01:22:11,473 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 01:22:11,475 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service. [testng] 01:22:11,475 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:22:11,476 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:22:11,476 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:22:11,476 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:22:11,477 |-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] 01:22:11,477 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:22:11,477 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:22:11,477 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:22:11,478 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:22:11,478 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:22:11,712 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:22:11,712 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:22:11,741 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:22:11,741 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:22:11,749 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:22:11,749 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:22:11,749 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:22:11,750 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:22:11,750 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 01:22:11,751 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 01:22:11,751 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 274 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-04-05 01:22:11,761] [main] java.version = 1.8.0_342 [testng] 01:22:11,765 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:22:11,765 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:22:11,811 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-04-05_01-22-11.log] [testng] 01:22:11,812 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-04-05 01:22:11,814] [main] testng.directory = /data [testng] [2024-04-05 01:22:11,814] [main] testng.configDirectory = /config [testng] [2024-04-05 01:22:11,826] [main] testng.multiplier = 1.0 [testng] [2024-04-05 01:22:11,827] [main] testng.in-memory = false [testng] [2024-04-05 01:22:11,827] [main] testng.allow-missing = false [testng] [2024-04-05 01:22:11,827] [main] user.language = en [testng] [2024-04-05 01:22:11,827] [main] user.country = ${user.country} [testng] [2024-04-05 01:22:11,827] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-04-05 01:22:12,311] [main] ---------------------------------------- [testng] [2024-04-05 01:22:12,311] [main] Total files: 22 [testng] [2024-04-05 01:22:12,311] [main] Scan time: 0.484 s (22 ms/file) [testng] [2024-04-05 01:22:12,311] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 22 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-04-05 01:22:59,816] [pool-1-thread-1] Initializing /data/imagej/3D_Chromosome.zip: [testng] 01:22:59,817 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:22:59,817 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:22:59,818 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-04-05_01-22-59.log] [testng] 01:22:59,819 |-INFO in ch.qos.logback.core.sift.SiftProcessor@488cbc4 - End of configuration. [testng] [2024-04-05 01:23:00,171] [pool-1-thread-12] Initializing /data/imagej/watershed-animation.zip: [testng] 01:23:00,172 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:23:00,172 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:00,173 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-04-05_01-23-00.log] [testng] 01:23:00,173 |-INFO in ch.qos.logback.core.sift.SiftProcessor@132deff1 - End of configuration. [testng] [2024-04-05 01:23:00,288] [pool-1-thread-11] Initializing /data/imagej/scala-media.zip: [testng] 01:23:00,288 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:23:00,289 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:00,291 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-04-05_01-23-00.log] [testng] 01:23:00,291 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2c436ad - End of configuration. [testng] [2024-04-05 01:23:00,416] [pool-1-thread-10] Initializing /data/imagej/cheetah_256_8.tif.zip: [testng] 01:23:00,416 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:23:00,416 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:00,417 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-04-05_01-23-00.log] [testng] 01:23:00,417 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4e5c40f3 - End of configuration. [testng] [2024-04-05 01:23:00,584] [pool-1-thread-9] Initializing /data/imagej/mri-stack.zip: [testng] 01:23:00,584 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:23:00,584 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:00,585 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-04-05_01-23-00.log] [testng] 01:23:00,585 |-INFO in ch.qos.logback.core.sift.SiftProcessor@78059d46 - End of configuration. [testng] [2024-04-05 01:23:00,813] [pool-1-thread-8] Initializing /data/imagej/blood-brain-barrier.zip: [testng] 01:23:00,813 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:23:00,813 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:00,813 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-04-05_01-23-00.log] [testng] 01:23:00,814 |-INFO in ch.qos.logback.core.sift.SiftProcessor@215dd73a - End of configuration. [testng] [2024-04-05 01:23:06,154] [pool-1-thread-7] Initializing /data/imagej/Rat_Hippocampal_Neuron.zip: [testng] 01:23:06,154 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:23:06,154 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:06,155 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-04-05_01-23-06.log] [testng] 01:23:06,155 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6d6a9bd1 - End of configuration. [testng] [2024-04-05 01:23:07,479] [pool-1-thread-6] Initializing /data/imagej/m51.zip: [testng] 01:23:07,480 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:23:07,480 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:07,481 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-04-05_01-23-07.log] [testng] 01:23:07,481 |-INFO in ch.qos.logback.core.sift.SiftProcessor@43a82b04 - End of configuration. [testng] [2024-04-05 01:23:07,629] [pool-1-thread-5] Initializing /data/imagej/se3.zip: [testng] 01:23:07,629 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:23:07,629 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:07,630 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-04-05_01-23-07.log] [testng] 01:23:07,630 |-INFO in ch.qos.logback.core.sift.SiftProcessor@407b09d7 - End of configuration. [testng] [2024-04-05 01:23:11,900] [pool-1-thread-4] Initializing /data/imagej/hela-cells.zip: [testng] 01:23:11,900 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:23:11,900 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:11,901 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-04-05_01-23-11.log] [testng] 01:23:11,902 |-INFO in ch.qos.logback.core.sift.SiftProcessor@198d2268 - End of configuration. [testng] [2024-04-05 01:23:12,757] [pool-1-thread-3] Initializing /data/imagej/FluorescentCells.zip: [testng] 01:23:12,757 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:23:12,757 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:12,757 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-04-05_01-23-12.log] [testng] 01:23:12,758 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7d6ed911 - End of configuration. [testng] [2024-04-05 01:23:13,003] [pool-1-thread-2] Initializing /data/imagej/4D-Stack(256x256x20x10).zip: [testng] 01:23:13,003 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:23:13,003 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:13,004 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-04-05_01-23-13.log] [testng] 01:23:13,005 |-INFO in ch.qos.logback.core.sift.SiftProcessor@69265d - End of configuration. [testng] [2024-04-05 01:23:21,043] [pool-1-thread-11] Initializing /data/samples/sdub.zip: [testng] [2024-04-05 01:23:21,549] [pool-1-thread-6] Initializing /data/imagej/gel-electrophoresis.zip: [testng] [2024-04-05 01:23:23,746] [pool-1-thread-12] Initializing /data/imagej/confocal-stack.zip: [testng] [2024-04-05 01:23:32,066] [pool-1-thread-10] Initializing /data/samples/bat-cochlea-volume.zip: [testng] [2024-04-05 01:23:34,243] [pool-1-thread-3] Initializing /data/imagej/RatBrain.zip: [testng] [2024-04-05 01:23:35,119] [pool-1-thread-9] Initializing /data/imagej/fat-cells.zip: [testng] [2024-04-05 01:23:38,911] [pool-1-thread-1] Initializing /data/imagej/flybrain.zip: [testng] [2024-04-05 01:23:46,073] [pool-1-thread-3] Initializing /data/imagej/xrays.zip: [testng] [2024-04-05 01:23:46,240] [pool-1-thread-11] Initializing /data/imagej/Rat_Hippocampal_Neuron2.zip: [testng] [2024-04-05 01:23:49,214] [pool-1-thread-3] 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: 6 minutes 41 seconds Finished: SUCCESS