Started by upstream project "BIOFORMATS-test-repo" build number 35 originally caused by: Started by upstream project "Trigger" build number 39 originally caused by: Started by user devspace 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/jenkins15432556780548201620.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_4750_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] 12:07:40,477 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 12:07:40,479 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service. [testng] 12:07:40,479 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 12:07:40,480 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 12:07:40,480 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 12:07:40,481 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 12:07:40,481 |-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] 12:07:40,481 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 12:07:40,481 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 12:07:40,482 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 12:07:40,482 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 12:07:40,482 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 12:07:40,711 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 12:07:40,711 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 12:07:40,740 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 12:07:40,740 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 12:07:40,748 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 12:07:40,749 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 12:07:40,749 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 12:07:40,749 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 12:07:40,749 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 12:07:40,750 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 12:07:40,750 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 269 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-04-15 12:07:40,760] [main] java.version = 1.8.0_342 [testng] 12:07:40,764 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 12:07:40,764 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:07:40,827 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-04-15_12-07-40.log] [testng] 12:07:40,829 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-04-15 12:07:40,832] [main] testng.directory = /data [testng] [2024-04-15 12:07:40,833] [main] testng.configDirectory = /config [testng] [2024-04-15 12:07:40,846] [main] testng.multiplier = 1.0 [testng] [2024-04-15 12:07:40,847] [main] testng.in-memory = false [testng] [2024-04-15 12:07:40,847] [main] testng.allow-missing = false [testng] [2024-04-15 12:07:40,847] [main] user.language = fr [testng] [2024-04-15 12:07:40,847] [main] user.country = FR [testng] [2024-04-15 12:07:40,847] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-04-15 12:07:41,317] [main] ---------------------------------------- [testng] [2024-04-15 12:07:41,317] [main] Total files: 22 [testng] [2024-04-15 12:07:41,317] [main] Scan time: 0.47 s (21 ms/file) [testng] [2024-04-15 12:07:41,317] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 22 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-04-15 12:08:25,980] [pool-1-thread-1] Initializing /data/imagej/gel-electrophoresis.zip: [testng] 12:08:25,980 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 12:08:25,980 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:08:25,981 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-04-15_12-08-25.log] [testng] 12:08:25,981 |-INFO in ch.qos.logback.core.sift.SiftProcessor@71982c4a - End of configuration. [testng] [2024-04-15 12:08:27,750] [pool-1-thread-12] Initializing /data/imagej/scala-media.zip: [testng] 12:08:27,750 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 12:08:27,750 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:08:27,751 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-04-15_12-08-27.log] [testng] 12:08:27,752 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2f5c18e7 - End of configuration. [testng] [2024-04-15 12:08:27,871] [pool-1-thread-11] Initializing /data/imagej/xrays.zip: [testng] 12:08:27,871 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 12:08:27,871 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:08:27,873 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-04-15_12-08-27.log] [testng] 12:08:27,873 |-INFO in ch.qos.logback.core.sift.SiftProcessor@78ad00a4 - End of configuration. [testng] [2024-04-15 12:08:27,985] [pool-1-thread-10] Initializing /data/imagej/RatBrain.zip: [testng] 12:08:27,985 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 12:08:27,985 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:08:27,986 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-04-15_12-08-27.log] [testng] 12:08:27,986 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1dfd1dee - End of configuration. [testng] [2024-04-15 12:08:28,159] [pool-1-thread-9] Initializing /data/imagej/flybrain.zip: [testng] 12:08:28,159 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 12:08:28,159 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:08:28,160 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-04-15_12-08-28.log] [testng] 12:08:28,160 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2de15ed3 - End of configuration. [testng] [2024-04-15 12:08:34,447] [pool-1-thread-8] Initializing /data/samples/sdub.zip: [testng] 12:08:34,447 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 12:08:34,447 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:08:34,448 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-04-15_12-08-34.log] [testng] 12:08:34,448 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4a95ea96 - End of configuration. [testng] [2024-04-15 12:08:34,932] [pool-1-thread-7] Initializing /data/imagej/fat-cells.zip: [testng] 12:08:34,932 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 12:08:34,932 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:08:34,933 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-04-15_12-08-34.log] [testng] 12:08:34,934 |-INFO in ch.qos.logback.core.sift.SiftProcessor@56727178 - End of configuration. [testng] [2024-04-15 12:08:37,470] [pool-1-thread-6] Initializing /data/imagej/FluorescentCells.zip: [testng] 12:08:37,470 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 12:08:37,470 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:08:37,471 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-04-15_12-08-37.log] [testng] 12:08:37,471 |-INFO in ch.qos.logback.core.sift.SiftProcessor@72596e21 - End of configuration. [testng] [2024-04-15 12:08:37,694] [pool-1-thread-5] Initializing /data/imagej/Rat_Hippocampal_Neuron2.zip: [testng] 12:08:37,695 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 12:08:37,695 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:08:37,696 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-04-15_12-08-37.log] [testng] 12:08:37,696 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5469453b - End of configuration. [testng] [2024-04-15 12:08:38,937] [pool-1-thread-4] Initializing /data/imagej/4D-Stack(256x256x20x10).zip: [testng] 12:08:38,938 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 12:08:38,938 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:08:38,939 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-04-15_12-08-38.log] [testng] 12:08:38,939 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1ed66e33 - End of configuration. [testng] [2024-04-15 12:08:45,051] [pool-1-thread-3] Initializing /data/imagej/se3.zip: [testng] 12:08:45,051 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 12:08:45,051 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:08:45,052 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-04-15_12-08-45.log] [testng] 12:08:45,052 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7572dc4a - End of configuration. [testng] [2024-04-15 12:08:49,023] [pool-1-thread-2] Initializing /data/imagej/mri-stack.zip: [testng] 12:08:49,023 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 12:08:49,023 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:08:49,024 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-04-15_12-08-49.log] [testng] 12:08:49,025 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5bb447ae - End of configuration. [testng] [2024-04-15 12:08:51,211] [pool-1-thread-12] Initializing /data/imagej/Rat_Hippocampal_Neuron.zip: [testng] [2024-04-15 12:08:52,396] [pool-1-thread-11] Initializing /data/imagej/blood-brain-barrier.zip: [testng] [2024-04-15 12:08:58,762] [pool-1-thread-10] Initializing /data/imagej/confocal-stack.zip: [testng] [2024-04-15 12:09:07,992] [pool-1-thread-6] Initializing /data/imagej/hela-cells.zip: [testng] [2024-04-15 12:09:10,517] [pool-1-thread-2] Initializing /data/imagej/watershed-animation.zip: [testng] [2024-04-15 12:09:11,756] [pool-1-thread-8] Initializing /data/imagej/3D_Chromosome.zip: [testng] [2024-04-15 12:09:13,170] [pool-1-thread-2] Initializing /data/imagej/m51.zip: [testng] [2024-04-15 12:09:15,307] [pool-1-thread-2] Initializing /data/imagej/confocal-series.zip: [testng] [2024-04-15 12:09:26,216] [pool-1-thread-8] Initializing /data/samples/bat-cochlea-volume.zip: [testng] [2024-04-15 12:09:34,707] [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: 6 minutes 46 seconds Finished: SUCCESS