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Started by upstream project "BIOFORMATS-test-repo" build number 217 originally caused by: Started by upstream project "Trigger" build number 244 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/jenkins6966482114105972295.sh + '[' zip = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_34389_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] 01:45:06,934 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 01:45:06,936 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 01:45:06,936 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:45:06,937 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:45:06,937 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:45:06,937 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:45:06,938 |-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] 01:45:06,938 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:45:06,938 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:45:06,939 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:45:06,939 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:45:06,939 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:45:07,188 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:45:07,188 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:45:07,216 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:45:07,216 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:45:07,224 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:45:07,224 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:45:07,224 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:45:07,225 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:45:07,225 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 01:45:07,226 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 01:45:07,226 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 288 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-10-11 01:45:07,236] [main] java.version = 1.8.0_342 [testng] 01:45:07,239 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:45:07,239 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:45:07,285 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-11_01-45-07.log] [testng] 01:45:07,287 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2024-10-11 01:45:07,289] [main] testng.directory = /data [testng] [2024-10-11 01:45:07,289] [main] testng.configDirectory = /config [testng] [2024-10-11 01:45:07,301] [main] testng.multiplier = 1.0 [testng] [2024-10-11 01:45:07,302] [main] testng.in-memory = false [testng] [2024-10-11 01:45:07,302] [main] testng.allow-missing = false [testng] [2024-10-11 01:45:07,302] [main] user.language = en [testng] [2024-10-11 01:45:07,302] [main] user.country = ${user.country} [testng] [2024-10-11 01:45:07,302] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-10-11 01:45:11,548] [main] ---------------------------------------- [testng] [2024-10-11 01:45:11,548] [main] Total files: 22 [testng] [2024-10-11 01:45:11,548] [main] Scan time: 4.246 s (193 ms/file) [testng] [2024-10-11 01:45:11,548] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 22 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-10-11 01:50:29,242] [pool-1-thread-1] Initializing /data/samples/sdub.zip: [testng] 01:50:29,243 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:50:29,243 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:50:29,244 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-11_01-50-29.log] [testng] 01:50:29,244 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3a0d8ea6 - End of configuration. [testng] [2024-10-11 01:50:31,753] [pool-1-thread-12] Initializing /data/imagej/mri-stack.zip: [testng] 01:50:31,754 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:50:31,754 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:50:31,754 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-10-11_01-50-31.log] [testng] 01:50:31,755 |-INFO in ch.qos.logback.core.sift.SiftProcessor@29443761 - End of configuration. [testng] [2024-10-11 01:50:41,815] [pool-1-thread-11] Initializing /data/imagej/hela-cells.zip: [testng] 01:50:41,815 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:50:41,815 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:50:41,816 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-10-11_01-50-41.log] [testng] 01:50:41,816 |-INFO in ch.qos.logback.core.sift.SiftProcessor@823faba - End of configuration. [testng] [2024-10-11 01:50:54,526] [pool-1-thread-10] Initializing /data/imagej/watershed-animation.zip: [testng] 01:50:54,526 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:50:54,526 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:50:54,527 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-11_01-50-54.log] [testng] 01:50:54,527 |-INFO in ch.qos.logback.core.sift.SiftProcessor@261342e - End of configuration. [testng] [2024-10-11 01:51:03,235] [pool-1-thread-9] Initializing /data/imagej/4D-Stack(256x256x20x10).zip: [testng] 01:51:03,236 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:51:03,236 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:51:03,236 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-11_01-51-03.log] [testng] 01:51:03,236 |-INFO in ch.qos.logback.core.sift.SiftProcessor@526312f3 - End of configuration. [testng] [2024-10-11 01:51:31,261] [pool-1-thread-8] Initializing /data/imagej/gel-electrophoresis.zip: [testng] 01:51:31,262 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:51:31,262 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:51:31,263 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-11_01-51-31.log] [testng] 01:51:31,263 |-INFO in ch.qos.logback.core.sift.SiftProcessor@26159881 - End of configuration. [testng] [2024-10-11 01:51:43,506] [pool-1-thread-7] Initializing /data/imagej/cheetah_256_8.tif.zip: [testng] 01:51:43,506 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:51:43,506 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:51:43,507 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-11_01-51-43.log] [testng] 01:51:43,507 |-INFO in ch.qos.logback.core.sift.SiftProcessor@41178ab4 - End of configuration. [testng] [2024-10-11 01:51:56,205] [pool-1-thread-6] Initializing /data/imagej/xrays.zip: [testng] 01:51:56,206 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:51:56,206 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:51:56,206 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-11_01-51-56.log] [testng] 01:51:56,207 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2ba318f8 - End of configuration. [testng] [2024-10-11 01:52:04,792] [pool-1-thread-5] Initializing /data/imagej/confocal-stack.zip: [testng] 01:52:04,792 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:52:04,792 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:52:04,793 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-11_01-52-04.log] [testng] 01:52:04,793 |-INFO in ch.qos.logback.core.sift.SiftProcessor@158d6fba - End of configuration. [testng] [2024-10-11 01:52:34,151] [pool-1-thread-4] Initializing /data/imagej/FluorescentCells.zip: [testng] 01:52:34,152 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:52:34,152 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:52:34,153 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-11_01-52-34.log] [testng] 01:52:34,153 |-INFO in ch.qos.logback.core.sift.SiftProcessor@447910ab - End of configuration. [testng] [2024-10-11 01:52:44,316] [pool-1-thread-3] Initializing /data/imagej/fat-cells.zip: [testng] 01:52:44,316 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:52:44,316 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:52:44,317 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-11_01-52-44.log] [testng] 01:52:44,317 |-INFO in ch.qos.logback.core.sift.SiftProcessor@48cb6cd5 - End of configuration. [testng] [2024-10-11 01:52:54,549] [pool-1-thread-2] Initializing /data/imagej/Rat_Hippocampal_Neuron2.zip: [testng] 01:52:54,550 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:52:54,550 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:52:54,550 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-11_01-52-54.log] [testng] 01:52:54,551 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5ca5fac8 - End of configuration. [testng] [2024-10-11 01:53:38,282] [pool-1-thread-1] Initializing /data/imagej/se3.zip: [testng] [2024-10-11 01:54:36,007] [pool-1-thread-6] Initializing /data/imagej/RatBrain.zip: [testng] [2024-10-11 01:54:55,108] [pool-1-thread-12] Initializing /data/imagej/blood-brain-barrier.zip: [testng] [2024-10-11 01:55:18,773] [pool-1-thread-10] Initializing /data/imagej/Rat_Hippocampal_Neuron.zip: [testng] [2024-10-11 01:55:38,966] [pool-1-thread-4] Initializing /data/imagej/scala-media.zip: [testng] [2024-10-11 01:55:45,929] [pool-1-thread-7] Initializing /data/imagej/confocal-series.zip: [testng] [2024-10-11 01:56:21,154] [pool-1-thread-8] Initializing /data/imagej/3D_Chromosome.zip: [testng] [2024-10-11 01:56:30,273] [pool-1-thread-11] Initializing /data/imagej/flybrain.zip: [testng] [2024-10-11 01:57:09,712] [pool-1-thread-2] Initializing /data/imagej/m51.zip: [testng] [2024-10-11 01:57:32,975] [pool-1-thread-3] 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: 17 minutes 37 seconds Finished: SUCCESS