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Started by upstream project "BIOFORMATS-test-repo" build number 99 originally caused by: Started by upstream project "Trigger" build number 110 originally caused by: Started by timer 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/jenkins8867770568327212453.sh + '[' zip = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_15247_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] 01:23:54,103 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 01:23:54,105 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service. [testng] 01:23:54,105 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:23:54,106 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:23:54,107 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:23:54,107 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:23:54,107 |-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] 01:23:54,107 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:23:54,108 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:23:54,108 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:23:54,108 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:23:54,108 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:23:54,382 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:23:54,382 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:23:54,413 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:23:54,413 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:23:54,421 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:23:54,422 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:23:54,422 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:23:54,422 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:23:54,422 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 01:23:54,423 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 01:23:54,423 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 315 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-06-21 01:23:54,434] [main] java.version = 1.8.0_342 [testng] 01:23:54,437 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:23:54,438 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:54,485 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-06-21_01-23-54.log] [testng] 01:23:54,487 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-06-21 01:23:54,489] [main] testng.directory = /data [testng] [2024-06-21 01:23:54,489] [main] testng.configDirectory = /config [testng] [2024-06-21 01:23:54,502] [main] testng.multiplier = 1.0 [testng] [2024-06-21 01:23:54,502] [main] testng.in-memory = false [testng] [2024-06-21 01:23:54,502] [main] testng.allow-missing = false [testng] [2024-06-21 01:23:54,502] [main] user.language = en [testng] [2024-06-21 01:23:54,502] [main] user.country = ${user.country} [testng] [2024-06-21 01:23:54,502] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-06-21 01:23:54,938] [main] ---------------------------------------- [testng] [2024-06-21 01:23:54,938] [main] Total files: 22 [testng] [2024-06-21 01:23:54,938] [main] Scan time: 0.436 s (19 ms/file) [testng] [2024-06-21 01:23:54,938] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 22 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-06-21 01:24:44,438] [pool-1-thread-1] Initializing /data/imagej/3D_Chromosome.zip: [testng] 01:24:44,438 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:24:44,439 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:44,439 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-06-21_01-24-44.log] [testng] 01:24:44,440 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3ab8ac5d - End of configuration. [testng] [2024-06-21 01:24:44,819] [pool-1-thread-12] Initializing /data/imagej/watershed-animation.zip: [testng] 01:24:44,819 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:24:44,819 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:44,820 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-06-21_01-24-44.log] [testng] 01:24:44,820 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2e94b0e9 - End of configuration. [testng] [2024-06-21 01:24:44,998] [pool-1-thread-11] Initializing /data/imagej/scala-media.zip: [testng] 01:24:44,999 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:24:44,999 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:45,000 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-06-21_01-24-44.log] [testng] 01:24:45,000 |-INFO in ch.qos.logback.core.sift.SiftProcessor@200af203 - End of configuration. [testng] [2024-06-21 01:24:45,174] [pool-1-thread-10] Initializing /data/imagej/cheetah_256_8.tif.zip: [testng] 01:24:45,174 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:24:45,174 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:45,175 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-06-21_01-24-45.log] [testng] 01:24:45,176 |-INFO in ch.qos.logback.core.sift.SiftProcessor@482bf22f - End of configuration. [testng] [2024-06-21 01:24:45,451] [pool-1-thread-9] Initializing /data/imagej/mri-stack.zip: [testng] 01:24:45,452 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:24:45,452 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:45,453 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-06-21_01-24-45.log] [testng] 01:24:45,453 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7da2a984 - End of configuration. [testng] [2024-06-21 01:24:45,710] [pool-1-thread-8] Initializing /data/imagej/blood-brain-barrier.zip: [testng] 01:24:45,710 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:24:45,710 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:45,711 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-06-21_01-24-45.log] [testng] 01:24:45,712 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4d2e8299 - End of configuration. [testng] [2024-06-21 01:24:51,347] [pool-1-thread-7] Initializing /data/imagej/Rat_Hippocampal_Neuron.zip: [testng] 01:24:51,347 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:24:51,347 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:51,348 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-06-21_01-24-51.log] [testng] 01:24:51,348 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3d9b10d8 - End of configuration. [testng] [2024-06-21 01:24:52,575] [pool-1-thread-6] Initializing /data/imagej/m51.zip: [testng] 01:24:52,575 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:24:52,575 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:52,576 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-06-21_01-24-52.log] [testng] 01:24:52,576 |-INFO in ch.qos.logback.core.sift.SiftProcessor@38df8878 - End of configuration. [testng] [2024-06-21 01:24:52,669] [pool-1-thread-5] Initializing /data/imagej/se3.zip: [testng] 01:24:52,669 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:24:52,669 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:52,670 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-06-21_01-24-52.log] [testng] 01:24:52,671 |-INFO in ch.qos.logback.core.sift.SiftProcessor@464722fc - End of configuration. [testng] [2024-06-21 01:24:57,023] [pool-1-thread-4] Initializing /data/imagej/hela-cells.zip: [testng] 01:24:57,024 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:24:57,024 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:57,025 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-06-21_01-24-57.log] [testng] 01:24:57,025 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4edc71a1 - End of configuration. [testng] [2024-06-21 01:24:57,879] [pool-1-thread-3] Initializing /data/imagej/FluorescentCells.zip: [testng] 01:24:57,879 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:24:57,879 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:57,880 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-06-21_01-24-57.log] [testng] 01:24:57,880 |-INFO in ch.qos.logback.core.sift.SiftProcessor@47561006 - End of configuration. [testng] [2024-06-21 01:24:58,067] [pool-1-thread-2] Initializing /data/imagej/4D-Stack(256x256x20x10).zip: [testng] 01:24:58,068 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:24:58,068 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:58,068 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-06-21_01-24-58.log] [testng] 01:24:58,069 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6104e72b - End of configuration. [testng] [2024-06-21 01:25:06,854] [pool-1-thread-11] Initializing /data/samples/sdub.zip: [testng] [2024-06-21 01:25:07,397] [pool-1-thread-6] Initializing /data/imagej/gel-electrophoresis.zip: [testng] [2024-06-21 01:25:09,796] [pool-1-thread-12] Initializing /data/imagej/confocal-stack.zip: [testng] [2024-06-21 01:25:19,766] [pool-1-thread-10] Initializing /data/samples/bat-cochlea-volume.zip: [testng] [2024-06-21 01:25:21,623] [pool-1-thread-3] Initializing /data/imagej/RatBrain.zip: [testng] [2024-06-21 01:25:22,441] [pool-1-thread-9] Initializing /data/imagej/fat-cells.zip: [testng] [2024-06-21 01:25:26,098] [pool-1-thread-1] Initializing /data/imagej/flybrain.zip: [testng] [2024-06-21 01:25:36,170] [pool-1-thread-11] Initializing /data/imagej/xrays.zip: [testng] [2024-06-21 01:25:36,662] [pool-1-thread-3] Initializing /data/imagej/Rat_Hippocampal_Neuron2.zip: [testng] [2024-06-21 01:25:39,912] [pool-1-thread-11] 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: 7 minutes 3 seconds Finished: SUCCESS