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Started by upstream project "BIOFORMATS-test-repo" build number 5 originally caused by: Started by upstream project "Trigger" build number 6 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/jenkins1043246878728221996.sh + '[' zip = slidebook ']' ++ date +%u + '[' 1 -le 1 ']' + DOCKER_ARGS='-Dtestng.memory=15g -Dtestng.threadCount=12 -Duser.language=fr -Duser.country=FR' + sudo docker run --rm --name BIOFORMATS-test-folder_648_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 -Duser.language=fr -Duser.country=FR 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] 00:23:03,223 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 00:23:03,225 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service. [testng] 00:23:03,225 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:23:03,226 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:23:03,226 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 00:23:03,226 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 00:23:03,227 |-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] 00:23:03,227 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:23:03,227 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:23:03,228 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 00:23:03,228 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 00:23:03,228 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 00:23:03,463 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 00:23:03,463 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 00:23:03,493 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 00:23:03,493 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 00:23:03,501 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 00:23:03,502 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 00:23:03,502 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 00:23:03,502 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 00:23:03,502 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 00:23:03,503 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 00:23:03,503 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 276 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-03-18 00:23:03,513] [main] java.version = 1.8.0_342 [testng] 00:23:03,517 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 00:23:03,517 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:23:03,563 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-03-18_00-23-03.log] [testng] 00:23:03,565 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-03-18 00:23:03,567] [main] testng.directory = /data [testng] [2024-03-18 00:23:03,567] [main] testng.configDirectory = /config [testng] [2024-03-18 00:23:03,579] [main] testng.multiplier = 1.0 [testng] [2024-03-18 00:23:03,580] [main] testng.in-memory = false [testng] [2024-03-18 00:23:03,580] [main] testng.allow-missing = false [testng] [2024-03-18 00:23:03,580] [main] user.language = fr [testng] [2024-03-18 00:23:03,580] [main] user.country = FR [testng] [2024-03-18 00:23:03,580] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-03-18 00:23:04,027] [main] ---------------------------------------- [testng] [2024-03-18 00:23:04,027] [main] Total files: 22 [testng] [2024-03-18 00:23:04,027] [main] Scan time: 0.447 s (20 ms/file) [testng] [2024-03-18 00:23:04,027] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 22 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-03-18 00:24:09,402] [pool-1-thread-1] Initializing /data/imagej/gel-electrophoresis.zip: [testng] 00:24:09,402 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 00:24:09,403 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:24:09,403 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-03-18_00-24-09.log] [testng] 00:24:09,404 |-INFO in ch.qos.logback.core.sift.SiftProcessor@566a3b43 - End of configuration. [testng] [2024-03-18 00:24:11,629] [pool-1-thread-12] Initializing /data/imagej/scala-media.zip: [testng] 00:24:11,629 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 00:24:11,629 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:24:11,630 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-03-18_00-24-11.log] [testng] 00:24:11,630 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2f12c07e - End of configuration. [testng] [2024-03-18 00:24:12,192] [pool-1-thread-11] Initializing /data/imagej/xrays.zip: [testng] 00:24:12,193 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 00:24:12,193 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:24:12,193 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-03-18_00-24-12.log] [testng] 00:24:12,194 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3f072ffa - End of configuration. [testng] [2024-03-18 00:24:12,720] [pool-1-thread-10] Initializing /data/imagej/RatBrain.zip: [testng] 00:24:12,720 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 00:24:12,720 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:24:12,721 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-03-18_00-24-12.log] [testng] 00:24:12,721 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7c0f79c7 - End of configuration. [testng] [2024-03-18 00:24:13,411] [pool-1-thread-9] Initializing /data/imagej/flybrain.zip: [testng] 00:24:13,411 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 00:24:13,412 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:24:13,412 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-03-18_00-24-13.log] [testng] 00:24:13,413 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5bb447ae - End of configuration. [testng] [2024-03-18 00:24:19,640] [pool-1-thread-8] Initializing /data/samples/sdub.zip: [testng] 00:24:19,641 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 00:24:19,641 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:24:19,642 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-03-18_00-24-19.log] [testng] 00:24:19,642 |-INFO in ch.qos.logback.core.sift.SiftProcessor@15a08ac9 - End of configuration. [testng] [2024-03-18 00:24:20,189] [pool-1-thread-7] Initializing /data/imagej/fat-cells.zip: [testng] 00:24:20,190 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 00:24:20,190 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:24:20,190 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-03-18_00-24-20.log] [testng] 00:24:20,191 |-INFO in ch.qos.logback.core.sift.SiftProcessor@40e15d5c - End of configuration. [testng] [2024-03-18 00:24:23,324] [pool-1-thread-6] Initializing /data/imagej/FluorescentCells.zip: [testng] 00:24:23,324 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 00:24:23,324 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:24:23,325 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-03-18_00-24-23.log] [testng] 00:24:23,325 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3736daa9 - End of configuration. [testng] [2024-03-18 00:24:24,009] [pool-1-thread-5] Initializing /data/imagej/Rat_Hippocampal_Neuron2.zip: [testng] 00:24:24,009 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 00:24:24,009 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:24:24,010 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-03-18_00-24-24.log] [testng] 00:24:24,010 |-INFO in ch.qos.logback.core.sift.SiftProcessor@424bcfa4 - End of configuration. [testng] [2024-03-18 00:24:25,688] [pool-1-thread-4] Initializing /data/imagej/4D-Stack(256x256x20x10).zip: [testng] 00:24:25,689 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 00:24:25,689 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:24:25,689 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-03-18_00-24-25.log] [testng] 00:24:25,690 |-INFO in ch.qos.logback.core.sift.SiftProcessor@31a24c54 - End of configuration. [testng] [2024-03-18 00:24:32,205] [pool-1-thread-3] Initializing /data/imagej/se3.zip: [testng] 00:24:32,205 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 00:24:32,205 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:24:32,206 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-03-18_00-24-32.log] [testng] 00:24:32,207 |-INFO in ch.qos.logback.core.sift.SiftProcessor@58f83363 - End of configuration. [testng] [2024-03-18 00:24:36,759] [pool-1-thread-2] Initializing /data/imagej/mri-stack.zip: [testng] 00:24:36,759 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 00:24:36,759 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:24:36,760 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-03-18_00-24-36.log] [testng] 00:24:36,760 |-INFO in ch.qos.logback.core.sift.SiftProcessor@65aa0 - End of configuration. [testng] [2024-03-18 00:24:46,351] [pool-1-thread-11] Initializing /data/imagej/Rat_Hippocampal_Neuron.zip: [testng] [2024-03-18 00:24:47,953] [pool-1-thread-12] Initializing /data/imagej/blood-brain-barrier.zip: [testng] [2024-03-18 00:24:54,088] [pool-1-thread-8] Initializing /data/imagej/confocal-stack.zip: [testng] [2024-03-18 00:25:03,231] [pool-1-thread-10] Initializing /data/imagej/hela-cells.zip: [testng] [2024-03-18 00:25:04,221] [pool-1-thread-6] Initializing /data/imagej/watershed-animation.zip: [testng] [2024-03-18 00:25:04,549] [pool-1-thread-2] Initializing /data/imagej/3D_Chromosome.zip: [testng] [2024-03-18 00:25:11,083] [pool-1-thread-6] Initializing /data/imagej/m51.zip: [testng] [2024-03-18 00:25:15,255] [pool-1-thread-6] Initializing /data/imagej/confocal-series.zip: [testng] [2024-03-18 00:25:22,985] [pool-1-thread-2] Initializing /data/samples/bat-cochlea-volume.zip: [testng] [2024-03-18 00:25:28,433] [pool-1-thread-5] Initializing /data/imagej/cheetah_256_8.tif.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 7 seconds Finished: SUCCESS