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Started by upstream project "BIOFORMATS-test-repo" build number 133 originally caused by: Started by upstream project "Trigger" build number 153 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@6 [BIOFORMATS-test-folder@6] $ /bin/bash -xe /tmp/jenkins17388382397427000440.sh + '[' zip = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_20823_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] 01:23:55,233 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 01:23:55,235 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service. [testng] 01:23:55,235 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:23:55,236 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:23:55,237 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:23:55,237 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:23:55,237 |-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] 01:23:55,237 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:23:55,238 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:23:55,238 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:23:55,238 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:23:55,238 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:23:55,484 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:23:55,485 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:23:55,515 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:23:55,515 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:23:55,523 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:23:55,523 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:23:55,523 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:23:55,524 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:23:55,524 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 01:23:55,525 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 01:23:55,525 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 287 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-07-26 01:23:55,535] [main] java.version = 1.8.0_342 [testng] 01:23:55,539 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:23:55,539 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:55,585 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-07-26_01-23-55.log] [testng] 01:23:55,587 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-07-26 01:23:55,589] [main] testng.directory = /data [testng] [2024-07-26 01:23:55,589] [main] testng.configDirectory = /config [testng] [2024-07-26 01:23:55,602] [main] testng.multiplier = 1.0 [testng] [2024-07-26 01:23:55,603] [main] testng.in-memory = false [testng] [2024-07-26 01:23:55,603] [main] testng.allow-missing = false [testng] [2024-07-26 01:23:55,603] [main] user.language = en [testng] [2024-07-26 01:23:55,603] [main] user.country = ${user.country} [testng] [2024-07-26 01:23:55,603] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-07-26 01:23:56,058] [main] ---------------------------------------- [testng] [2024-07-26 01:23:56,058] [main] Total files: 22 [testng] [2024-07-26 01:23:56,058] [main] Scan time: 0.455 s (20 ms/file) [testng] [2024-07-26 01:23:56,058] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 22 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-07-26 01:24:42,915] [pool-1-thread-1] Initializing /data/imagej/3D_Chromosome.zip: [testng] 01:24:42,915 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:24:42,916 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:42,917 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-07-26_01-24-42.log] [testng] 01:24:42,917 |-INFO in ch.qos.logback.core.sift.SiftProcessor@52c9328a - End of configuration. [testng] [2024-07-26 01:24:43,284] [pool-1-thread-12] Initializing /data/imagej/watershed-animation.zip: [testng] 01:24:43,284 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:24:43,284 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:43,286 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-07-26_01-24-43.log] [testng] 01:24:43,286 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2597045a - End of configuration. [testng] [2024-07-26 01:24:43,403] [pool-1-thread-11] Initializing /data/imagej/scala-media.zip: [testng] 01:24:43,404 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:24:43,404 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:43,405 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-07-26_01-24-43.log] [testng] 01:24:43,405 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4e199766 - End of configuration. [testng] [2024-07-26 01:24:43,515] [pool-1-thread-10] Initializing /data/imagej/cheetah_256_8.tif.zip: [testng] 01:24:43,515 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:24:43,515 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:43,516 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-07-26_01-24-43.log] [testng] 01:24:43,516 |-INFO in ch.qos.logback.core.sift.SiftProcessor@16f86803 - End of configuration. [testng] [2024-07-26 01:24:43,732] [pool-1-thread-9] Initializing /data/imagej/mri-stack.zip: [testng] 01:24:43,732 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:24:43,732 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:43,733 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-07-26_01-24-43.log] [testng] 01:24:43,734 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1d504e2 - End of configuration. [testng] [2024-07-26 01:24:43,963] [pool-1-thread-8] Initializing /data/imagej/blood-brain-barrier.zip: [testng] 01:24:43,963 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:24:43,963 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:43,964 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-07-26_01-24-43.log] [testng] 01:24:43,964 |-INFO in ch.qos.logback.core.sift.SiftProcessor@57c446cf - End of configuration. [testng] [2024-07-26 01:24:49,403] [pool-1-thread-7] Initializing /data/imagej/Rat_Hippocampal_Neuron.zip: [testng] 01:24:49,403 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:24:49,403 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:49,404 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-07-26_01-24-49.log] [testng] 01:24:49,404 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4fb6489c - End of configuration. [testng] [2024-07-26 01:24:50,555] [pool-1-thread-6] Initializing /data/imagej/m51.zip: [testng] 01:24:50,555 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:24:50,555 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:50,555 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-07-26_01-24-50.log] [testng] 01:24:50,556 |-INFO in ch.qos.logback.core.sift.SiftProcessor@45e9a859 - End of configuration. [testng] [2024-07-26 01:24:50,644] [pool-1-thread-5] Initializing /data/imagej/se3.zip: [testng] 01:24:50,645 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:24:50,645 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:50,645 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-07-26_01-24-50.log] [testng] 01:24:50,646 |-INFO in ch.qos.logback.core.sift.SiftProcessor@18356586 - End of configuration. [testng] [2024-07-26 01:24:54,952] [pool-1-thread-4] Initializing /data/imagej/hela-cells.zip: [testng] 01:24:54,952 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:24:54,952 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:54,953 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-07-26_01-24-54.log] [testng] 01:24:54,953 |-INFO in ch.qos.logback.core.sift.SiftProcessor@132deff1 - End of configuration. [testng] [2024-07-26 01:24:55,902] [pool-1-thread-3] Initializing /data/imagej/FluorescentCells.zip: [testng] 01:24:55,903 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:24:55,903 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:55,904 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-07-26_01-24-55.log] [testng] 01:24:55,904 |-INFO in ch.qos.logback.core.sift.SiftProcessor@fd0bb55 - End of configuration. [testng] [2024-07-26 01:24:56,084] [pool-1-thread-2] Initializing /data/imagej/4D-Stack(256x256x20x10).zip: [testng] 01:24:56,084 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:24:56,084 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:56,085 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-07-26_01-24-56.log] [testng] 01:24:56,085 |-INFO in ch.qos.logback.core.sift.SiftProcessor@33cd7598 - End of configuration. [testng] [2024-07-26 01:25:04,075] [pool-1-thread-11] Initializing /data/samples/sdub.zip: [testng] [2024-07-26 01:25:04,703] [pool-1-thread-6] Initializing /data/imagej/gel-electrophoresis.zip: [testng] [2024-07-26 01:25:06,806] [pool-1-thread-12] Initializing /data/imagej/confocal-stack.zip: [testng] [2024-07-26 01:25:21,480] [pool-1-thread-10] Initializing /data/samples/bat-cochlea-volume.zip: [testng] [2024-07-26 01:25:23,896] [pool-1-thread-3] Initializing /data/imagej/RatBrain.zip: [testng] [2024-07-26 01:25:24,206] [pool-1-thread-9] Initializing /data/imagej/fat-cells.zip: [testng] [2024-07-26 01:25:29,009] [pool-1-thread-1] Initializing /data/imagej/flybrain.zip: [testng] [2024-07-26 01:25:37,156] [pool-1-thread-11] Initializing /data/imagej/xrays.zip: [testng] [2024-07-26 01:25:38,073] [pool-1-thread-3] Initializing /data/imagej/Rat_Hippocampal_Neuron2.zip: [testng] [2024-07-26 01:25:40,591] [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 27 seconds Finished: SUCCESS