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Started by upstream project "BIOFORMATS-test-repo" build number 105 originally caused by: Started by upstream project "Trigger" build number 117 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@8 [BIOFORMATS-test-folder@8] $ /bin/bash -xe /tmp/jenkins12652250096157780898.sh + '[' zip = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_16231_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] 01:29:04,396 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 01:29:04,398 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service. [testng] 01:29:04,398 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:29:04,399 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:29:04,399 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:29:04,400 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:29:04,400 |-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] 01:29:04,400 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:29:04,401 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:29:04,401 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:29:04,401 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:29:04,401 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:29:04,660 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:29:04,660 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:29:04,691 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:29:04,691 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:29:04,700 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:29:04,701 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:29:04,701 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:29:04,701 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:29:04,701 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 01:29:04,702 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 01:29:04,702 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 302 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-06-28 01:29:04,722] [main] java.version = 1.8.0_342 [testng] 01:29:04,729 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:29:04,729 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:29:04,779 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-06-28_01-29-04.log] [testng] 01:29:04,781 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-06-28 01:29:04,784] [main] testng.directory = /data [testng] [2024-06-28 01:29:04,784] [main] testng.configDirectory = /config [testng] [2024-06-28 01:29:04,798] [main] testng.multiplier = 1.0 [testng] [2024-06-28 01:29:04,798] [main] testng.in-memory = false [testng] [2024-06-28 01:29:04,798] [main] testng.allow-missing = false [testng] [2024-06-28 01:29:04,799] [main] user.language = en [testng] [2024-06-28 01:29:04,799] [main] user.country = ${user.country} [testng] [2024-06-28 01:29:04,799] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-06-28 01:29:05,266] [main] ---------------------------------------- [testng] [2024-06-28 01:29:05,266] [main] Total files: 22 [testng] [2024-06-28 01:29:05,266] [main] Scan time: 0.467 s (21 ms/file) [testng] [2024-06-28 01:29:05,267] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 22 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-06-28 01:29:49,566] [pool-1-thread-1] Initializing /data/imagej/3D_Chromosome.zip: [testng] 01:29:49,566 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:29:49,566 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:29:49,567 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-06-28_01-29-49.log] [testng] 01:29:49,568 |-INFO in ch.qos.logback.core.sift.SiftProcessor@27cc95cb - End of configuration. [testng] [2024-06-28 01:29:49,971] [pool-1-thread-12] Initializing /data/imagej/watershed-animation.zip: [testng] 01:29:49,971 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:29:49,971 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:29:49,973 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-06-28_01-29-49.log] [testng] 01:29:49,974 |-INFO in ch.qos.logback.core.sift.SiftProcessor@c4d8b04 - End of configuration. [testng] [2024-06-28 01:29:50,089] [pool-1-thread-11] Initializing /data/imagej/scala-media.zip: [testng] 01:29:50,089 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:29:50,089 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:29:50,090 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-06-28_01-29-50.log] [testng] 01:29:50,090 |-INFO in ch.qos.logback.core.sift.SiftProcessor@f357128 - End of configuration. [testng] [2024-06-28 01:29:50,180] [pool-1-thread-10] Initializing /data/imagej/cheetah_256_8.tif.zip: [testng] 01:29:50,180 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:29:50,181 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:29:50,182 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-06-28_01-29-50.log] [testng] 01:29:50,182 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5f01c0f - End of configuration. [testng] [2024-06-28 01:29:50,354] [pool-1-thread-9] Initializing /data/imagej/mri-stack.zip: [testng] 01:29:50,355 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:29:50,355 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:29:50,355 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-06-28_01-29-50.log] [testng] 01:29:50,356 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4e044654 - End of configuration. [testng] [2024-06-28 01:29:50,576] [pool-1-thread-8] Initializing /data/imagej/blood-brain-barrier.zip: [testng] 01:29:50,577 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:29:50,577 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:29:50,577 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-06-28_01-29-50.log] [testng] 01:29:50,578 |-INFO in ch.qos.logback.core.sift.SiftProcessor@28a8dd22 - End of configuration. [testng] [2024-06-28 01:29:55,924] [pool-1-thread-7] Initializing /data/imagej/Rat_Hippocampal_Neuron.zip: [testng] 01:29:55,924 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:29:55,925 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:29:55,926 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-06-28_01-29-55.log] [testng] 01:29:55,926 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4ea7124 - End of configuration. [testng] [2024-06-28 01:29:57,133] [pool-1-thread-6] Initializing /data/imagej/m51.zip: [testng] 01:29:57,133 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:29:57,133 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:29:57,134 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-06-28_01-29-57.log] [testng] 01:29:57,134 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7b4376b - End of configuration. [testng] [2024-06-28 01:29:57,235] [pool-1-thread-5] Initializing /data/imagej/se3.zip: [testng] 01:29:57,235 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:29:57,235 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:29:57,236 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-06-28_01-29-57.log] [testng] 01:29:57,236 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4b28506f - End of configuration. [testng] [2024-06-28 01:30:01,369] [pool-1-thread-4] Initializing /data/imagej/hela-cells.zip: [testng] 01:30:01,369 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:30:01,369 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:30:01,370 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-06-28_01-30-01.log] [testng] 01:30:01,370 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5cec17ce - End of configuration. [testng] [2024-06-28 01:30:02,129] [pool-1-thread-3] Initializing /data/imagej/FluorescentCells.zip: [testng] 01:30:02,129 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:30:02,129 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:30:02,129 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-06-28_01-30-02.log] [testng] 01:30:02,130 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2888bac9 - End of configuration. [testng] [2024-06-28 01:30:02,298] [pool-1-thread-2] Initializing /data/imagej/4D-Stack(256x256x20x10).zip: [testng] 01:30:02,298 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:30:02,298 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:30:02,299 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-06-28_01-30-02.log] [testng] 01:30:02,299 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2a341023 - End of configuration. [testng] [2024-06-28 01:30:10,749] [pool-1-thread-11] Initializing /data/samples/sdub.zip: [testng] [2024-06-28 01:30:11,347] [pool-1-thread-6] Initializing /data/imagej/gel-electrophoresis.zip: [testng] [2024-06-28 01:30:13,733] [pool-1-thread-12] Initializing /data/imagej/confocal-stack.zip: [testng] [2024-06-28 01:30:24,248] [pool-1-thread-10] Initializing /data/samples/bat-cochlea-volume.zip: [testng] [2024-06-28 01:30:26,576] [pool-1-thread-3] Initializing /data/imagej/RatBrain.zip: [testng] [2024-06-28 01:30:26,848] [pool-1-thread-9] Initializing /data/imagej/fat-cells.zip: [testng] [2024-06-28 01:30:31,844] [pool-1-thread-1] Initializing /data/imagej/flybrain.zip: [testng] [2024-06-28 01:30:39,740] [pool-1-thread-3] Initializing /data/imagej/xrays.zip: [testng] [2024-06-28 01:30:40,071] [pool-1-thread-11] Initializing /data/imagej/Rat_Hippocampal_Neuron2.zip: [testng] [2024-06-28 01:30:42,587] [pool-1-thread-3] 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 9 seconds Finished: SUCCESS