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Started by upstream project "BIOFORMATS-test-repo" build number 87 originally caused by: Started by upstream project "Trigger" build number 98 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@2 [BIOFORMATS-test-folder@2] $ /bin/bash -xe /tmp/jenkins14597100910185944087.sh + '[' zip = slidebook ']' ++ date +%u + '[' 7 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_13279_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 [javac] warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] 1 warning test-automated: [testng] Could not load field socket from SocketImpl: java.lang.NoSuchFieldException: socket [testng] Could not load field serverSocket from SocketImpl: java.lang.NoSuchFieldException: serverSocket [testng] File leak detector installed [testng] 01:22:39,969 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 01:22:39,971 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service. [testng] 01:22:39,971 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:22:39,972 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:22:39,973 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:22:39,974 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:22:39,974 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 2 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 01:22:39,974 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:22:39,975 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:22:39,976 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:22:39,976 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:22:39,976 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:22:40,177 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:22:40,177 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:22:40,203 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:22:40,203 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:22:40,209 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:22:40,209 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:22:40,209 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:22:40,210 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:22:40,210 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration. [testng] 01:22:40,210 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point [testng] 01:22:40,211 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 236 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-06-09 01:22:40,220] [main] java.version = 17.0.2 [testng] 01:22:40,224 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:22:40,224 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:22:40,270 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-06-09_01-22-40.log] [testng] 01:22:40,272 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration. [testng] [2024-06-09 01:22:40,274] [main] testng.directory = /data [testng] [2024-06-09 01:22:40,275] [main] testng.configDirectory = /config [testng] [2024-06-09 01:22:40,285] [main] testng.multiplier = 1.0 [testng] [2024-06-09 01:22:40,286] [main] testng.in-memory = false [testng] [2024-06-09 01:22:40,286] [main] testng.allow-missing = false [testng] [2024-06-09 01:22:40,286] [main] user.language = en [testng] [2024-06-09 01:22:40,286] [main] user.country = ${user.country} [testng] [2024-06-09 01:22:40,286] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-06-09 01:22:40,698] [main] ---------------------------------------- [testng] [2024-06-09 01:22:40,699] [main] Total files: 22 [testng] [2024-06-09 01:22:40,699] [main] Scan time: 0.412 s (18 ms/file) [testng] [2024-06-09 01:22:40,699] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 22 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-06-09 01:23:25,695] [pool-1-thread-1] Initializing /data/imagej/4D-Stack(256x256x20x10).zip: [testng] 01:23:25,696 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:23:25,696 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:25,697 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-06-09_01-23-25.log] [testng] 01:23:25,698 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1e49fef5 - End of configuration. [testng] [2024-06-09 01:23:30,693] [pool-1-thread-12] Initializing /data/imagej/fat-cells.zip: [testng] 01:23:30,693 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:23:30,693 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:30,694 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-06-09_01-23-30.log] [testng] 01:23:30,695 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1918466d - End of configuration. [testng] [2024-06-09 01:23:33,196] [pool-1-thread-11] Initializing /data/imagej/FluorescentCells.zip: [testng] 01:23:33,196 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:23:33,196 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:33,198 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-06-09_01-23-33.log] [testng] 01:23:33,198 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3aa5f15a - End of configuration. [testng] [2024-06-09 01:23:33,502] [pool-1-thread-10] Initializing /data/imagej/Rat_Hippocampal_Neuron2.zip: [testng] 01:23:33,503 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:23:33,503 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:33,504 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-06-09_01-23-33.log] [testng] 01:23:33,504 |-INFO in ch.qos.logback.core.sift.SiftProcessor@771d1763 - End of configuration. [testng] [2024-06-09 01:23:34,592] [pool-1-thread-9] Initializing /data/imagej/xrays.zip: [testng] 01:23:34,592 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:23:34,592 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:34,593 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-06-09_01-23-34.log] [testng] 01:23:34,593 |-INFO in ch.qos.logback.core.sift.SiftProcessor@22a2e67a - End of configuration. [testng] [2024-06-09 01:23:34,683] [pool-1-thread-8] Initializing /data/imagej/confocal-series.zip: [testng] 01:23:34,683 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:23:34,683 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:34,684 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-06-09_01-23-34.log] [testng] 01:23:34,684 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6c1c7cae - End of configuration. [testng] [2024-06-09 01:23:38,121] [pool-1-thread-7] Initializing /data/imagej/watershed-animation.zip: [testng] 01:23:38,122 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:23:38,122 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:38,123 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-06-09_01-23-38.log] [testng] 01:23:38,123 |-INFO in ch.qos.logback.core.sift.SiftProcessor@35027bb6 - End of configuration. [testng] [2024-06-09 01:23:38,301] [pool-1-thread-6] Initializing /data/imagej/scala-media.zip: [testng] 01:23:38,301 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:23:38,301 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:38,301 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-06-09_01-23-38.log] [testng] 01:23:38,302 |-INFO in ch.qos.logback.core.sift.SiftProcessor@949af37 - End of configuration. [testng] [2024-06-09 01:23:38,408] [pool-1-thread-5] Initializing /data/imagej/m51.zip: [testng] 01:23:38,408 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:23:38,408 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:38,409 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-06-09_01-23-38.log] [testng] 01:23:38,409 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1a0069cd - End of configuration. [testng] [2024-06-09 01:23:38,520] [pool-1-thread-4] Initializing /data/imagej/Rat_Hippocampal_Neuron.zip: [testng] 01:23:38,520 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:23:38,520 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:38,521 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-06-09_01-23-38.log] [testng] 01:23:38,521 |-INFO in ch.qos.logback.core.sift.SiftProcessor@a18e47 - End of configuration. [testng] [2024-06-09 01:23:39,568] [pool-1-thread-3] Initializing /data/imagej/hela-cells.zip: [testng] 01:23:39,568 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:23:39,568 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:39,569 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-06-09_01-23-39.log] [testng] 01:23:39,569 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5890eee9 - End of configuration. [testng] [2024-06-09 01:23:40,323] [pool-1-thread-2] Initializing /data/samples/bat-cochlea-volume.zip: [testng] 01:23:40,324 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:23:40,324 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:40,324 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-06-09_01-23-40.log] [testng] 01:23:40,325 |-INFO in ch.qos.logback.core.sift.SiftProcessor@54469fd3 - End of configuration. [testng] [2024-06-09 01:23:43,783] [pool-1-thread-9] Initializing /data/imagej/RatBrain.zip: [testng] [2024-06-09 01:23:43,970] [pool-1-thread-6] Initializing /data/imagej/flybrain.zip: [testng] [2024-06-09 01:23:48,605] [pool-1-thread-5] Initializing /data/imagej/3D_Chromosome.zip: [testng] [2024-06-09 01:23:50,331] [pool-1-thread-7] Initializing /data/imagej/cheetah_256_8.tif.zip: [testng] [2024-06-09 01:23:51,108] [pool-1-thread-11] Initializing /data/imagej/gel-electrophoresis.zip: [testng] [2024-06-09 01:23:54,233] [pool-1-thread-9] Initializing /data/imagej/se3.zip: [testng] [2024-06-09 01:23:58,549] [pool-1-thread-7] Initializing /data/samples/sdub.zip: [testng] [2024-06-09 01:24:02,209] [pool-1-thread-5] Initializing /data/imagej/blood-brain-barrier.zip: [testng] [2024-06-09 01:24:11,631] [pool-1-thread-7] Initializing /data/imagej/mri-stack.zip: [testng] [2024-06-09 01:24:12,092] [pool-1-thread-2] Initializing /data/imagej/confocal-stack.zip: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1166, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 5 minutes 50 seconds Finished: SUCCESS