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Started by upstream project "BIOFORMATS-test-repo" build number 38 originally caused by: Started by upstream project "Trigger" build number 44 originally caused by: Started by user devspace 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/jenkins8311120151218563802.sh + '[' zip = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_5242_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] 09:06:49,068 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 09:06:49,070 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service. [testng] 09:06:49,070 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 09:06:49,071 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 09:06:49,071 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 09:06:49,071 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 09:06:49,071 |-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] 09:06:49,071 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 09:06:49,072 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 09:06:49,072 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 09:06:49,072 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 09:06:49,072 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 09:06:49,310 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 09:06:49,310 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 09:06:49,341 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 09:06:49,342 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 09:06:49,351 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 09:06:49,351 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 09:06:49,351 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 09:06:49,352 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 09:06:49,352 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 09:06:49,353 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 09:06:49,353 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 281 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-04-19 09:06:49,363] [main] java.version = 1.8.0_342 [testng] 09:06:49,367 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 09:06:49,367 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:06:49,426 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-04-19_09-06-49.log] [testng] 09:06:49,428 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-04-19 09:06:49,431] [main] testng.directory = /data [testng] [2024-04-19 09:06:49,431] [main] testng.configDirectory = /config [testng] [2024-04-19 09:06:49,451] [main] testng.multiplier = 1.0 [testng] [2024-04-19 09:06:49,452] [main] testng.in-memory = false [testng] [2024-04-19 09:06:49,452] [main] testng.allow-missing = false [testng] [2024-04-19 09:06:49,452] [main] user.language = en [testng] [2024-04-19 09:06:49,452] [main] user.country = ${user.country} [testng] [2024-04-19 09:06:49,452] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-04-19 09:06:49,916] [main] ---------------------------------------- [testng] [2024-04-19 09:06:49,917] [main] Total files: 22 [testng] [2024-04-19 09:06:49,917] [main] Scan time: 0.464 s (21 ms/file) [testng] [2024-04-19 09:06:49,917] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 22 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-04-19 09:07:34,791] [pool-1-thread-1] Initializing /data/imagej/3D_Chromosome.zip: [testng] 09:07:34,791 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 09:07:34,791 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:07:34,792 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-04-19_09-07-34.log] [testng] 09:07:34,792 |-INFO in ch.qos.logback.core.sift.SiftProcessor@609a9a3b - End of configuration. [testng] [2024-04-19 09:07:35,164] [pool-1-thread-12] Initializing /data/imagej/watershed-animation.zip: [testng] 09:07:35,165 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 09:07:35,165 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:07:35,166 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-04-19_09-07-35.log] [testng] 09:07:35,166 |-INFO in ch.qos.logback.core.sift.SiftProcessor@78976ad - End of configuration. [testng] [2024-04-19 09:07:35,306] [pool-1-thread-11] Initializing /data/imagej/scala-media.zip: [testng] 09:07:35,306 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 09:07:35,306 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:07:35,307 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-04-19_09-07-35.log] [testng] 09:07:35,307 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3d22cf53 - End of configuration. [testng] [2024-04-19 09:07:35,394] [pool-1-thread-10] Initializing /data/imagej/cheetah_256_8.tif.zip: [testng] 09:07:35,395 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 09:07:35,395 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:07:35,395 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-04-19_09-07-35.log] [testng] 09:07:35,396 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6b0e9bdb - End of configuration. [testng] [2024-04-19 09:07:35,560] [pool-1-thread-9] Initializing /data/imagej/mri-stack.zip: [testng] 09:07:35,560 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 09:07:35,560 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:07:35,561 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-04-19_09-07-35.log] [testng] 09:07:35,561 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2a341023 - End of configuration. [testng] [2024-04-19 09:07:35,797] [pool-1-thread-8] Initializing /data/imagej/blood-brain-barrier.zip: [testng] 09:07:35,797 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 09:07:35,797 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:07:35,798 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-04-19_09-07-35.log] [testng] 09:07:35,799 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7c823ea1 - End of configuration. [testng] [2024-04-19 09:07:40,930] [pool-1-thread-7] Initializing /data/imagej/Rat_Hippocampal_Neuron.zip: [testng] 09:07:40,930 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 09:07:40,931 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:07:40,931 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-04-19_09-07-40.log] [testng] 09:07:40,932 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6d77ab48 - End of configuration. [testng] [2024-04-19 09:07:42,106] [pool-1-thread-6] Initializing /data/imagej/m51.zip: [testng] 09:07:42,106 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 09:07:42,106 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:07:42,107 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-04-19_09-07-42.log] [testng] 09:07:42,107 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21f65f64 - End of configuration. [testng] [2024-04-19 09:07:42,194] [pool-1-thread-5] Initializing /data/imagej/se3.zip: [testng] 09:07:42,194 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 09:07:42,194 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:07:42,195 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-04-19_09-07-42.log] [testng] 09:07:42,195 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4d2de57a - End of configuration. [testng] [2024-04-19 09:07:46,489] [pool-1-thread-4] Initializing /data/imagej/hela-cells.zip: [testng] 09:07:46,490 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 09:07:46,490 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:07:46,491 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-04-19_09-07-46.log] [testng] 09:07:46,491 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3f06421c - End of configuration. [testng] [2024-04-19 09:07:47,287] [pool-1-thread-3] Initializing /data/imagej/FluorescentCells.zip: [testng] 09:07:47,287 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 09:07:47,287 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:07:47,287 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-04-19_09-07-47.log] [testng] 09:07:47,288 |-INFO in ch.qos.logback.core.sift.SiftProcessor@dd19772 - End of configuration. [testng] [2024-04-19 09:07:47,493] [pool-1-thread-2] Initializing /data/imagej/4D-Stack(256x256x20x10).zip: [testng] 09:07:47,493 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 09:07:47,493 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:07:47,494 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-04-19_09-07-47.log] [testng] 09:07:47,494 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7bba286a - End of configuration. [testng] [2024-04-19 09:07:55,601] [pool-1-thread-11] Initializing /data/samples/sdub.zip: [testng] [2024-04-19 09:07:56,139] [pool-1-thread-6] Initializing /data/imagej/gel-electrophoresis.zip: [testng] [2024-04-19 09:07:58,037] [pool-1-thread-12] Initializing /data/imagej/confocal-stack.zip: [testng] [2024-04-19 09:08:06,232] [pool-1-thread-10] Initializing /data/samples/bat-cochlea-volume.zip: [testng] [2024-04-19 09:08:07,649] [pool-1-thread-3] Initializing /data/imagej/RatBrain.zip: [testng] [2024-04-19 09:08:08,438] [pool-1-thread-9] Initializing /data/imagej/fat-cells.zip: [testng] [2024-04-19 09:08:11,897] [pool-1-thread-1] Initializing /data/imagej/flybrain.zip: [testng] [2024-04-19 09:08:18,999] [pool-1-thread-3] Initializing /data/imagej/xrays.zip: [testng] [2024-04-19 09:08:19,343] [pool-1-thread-11] Initializing /data/imagej/Rat_Hippocampal_Neuron2.zip: [testng] [2024-04-19 09:08:22,397] [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 28 seconds Finished: SUCCESS