![[Jenkins]](/jenkins/static/eb00aee0/images/svgs/logo.svg){kind=logo}
Started by upstream project "BIOFORMATS-test-repo" build number 326 originally caused by: Started by upstream project "Trigger" build number 349 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@3 [BIOFORMATS-test-folder@3] $ /bin/bash -xe /tmp/jenkins991025479738455529.sh + '[' zip = slidebook ']' ++ date +%u + '[' 4 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_51715_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warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] warning: [options] source value 8 is obsolete and will be removed in a future release [javac] warning: [options] target value 8 is obsolete and will be removed in a future release [javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options. [javac] 4 warnings 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] 00:54:01,144 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15 [testng] 00:54:01,145 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - No custom configurators were discovered as a service. [testng] 00:54:01,145 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:54:01,146 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:54:01,147 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 00:54:01,147 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 00:54:01,147 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 00:54:01,147 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:54:01,148 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:54:01,148 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 00:54:01,149 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 00:54:01,149 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 00:54:01,321 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 00:54:01,321 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 00:54:01,348 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 00:54:01,348 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 00:54:01,355 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 00:54:01,355 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 00:54:01,355 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 00:54:01,356 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 00:54:01,356 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@4310d43 - End of configuration. [testng] 00:54:01,357 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@1b11171f - Registering current configuration as safe fallback point [testng] 00:54:01,357 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 209 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-01-23 00:54:01,366] [main] java.version = 21 [testng] 00:54:01,370 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 00:54:01,370 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:54:01,417 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-01-23_00-54-01.log] [testng] 00:54:01,419 |-INFO in ch.qos.logback.core.sift.SiftProcessor@69504ae9 - End of configuration. [testng] [2025-01-23 00:54:01,421] [main] testng.directory = /data [testng] [2025-01-23 00:54:01,421] [main] testng.configDirectory = /config [testng] [2025-01-23 00:54:01,430] [main] testng.multiplier = 1.0 [testng] [2025-01-23 00:54:01,431] [main] testng.in-memory = false [testng] [2025-01-23 00:54:01,431] [main] testng.allow-missing = false [testng] [2025-01-23 00:54:01,431] [main] user.language = en [testng] [2025-01-23 00:54:01,431] [main] user.country = ${user.country} [testng] [2025-01-23 00:54:01,432] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2025-01-23 00:54:01,990] [main] ---------------------------------------- [testng] [2025-01-23 00:54:01,990] [main] Total files: 22 [testng] [2025-01-23 00:54:01,990] [main] Scan time: 0.558 s (25 ms/file) [testng] [2025-01-23 00:54:01,991] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 22 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-01-23 00:56:03,331] [pool-1-thread-1] Initializing /data/imagej/Rat_Hippocampal_Neuron.zip: [testng] 00:56:03,332 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 00:56:03,332 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:56:03,334 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-01-23_00-56-03.log] [testng] 00:56:03,334 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2d20f129 - End of configuration. [testng] [2025-01-23 00:56:07,507] [pool-1-thread-12] Initializing /data/imagej/watershed-animation.zip: [testng] 00:56:07,508 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 00:56:07,508 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:56:07,508 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-01-23_00-56-07.log] [testng] 00:56:07,509 |-INFO in ch.qos.logback.core.sift.SiftProcessor@23e587c6 - End of configuration. [testng] [2025-01-23 00:56:09,594] [pool-1-thread-11] Initializing /data/imagej/cheetah_256_8.tif.zip: [testng] 00:56:09,594 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 00:56:09,594 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:56:09,595 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-01-23_00-56-09.log] [testng] 00:56:09,595 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5517552 - End of configuration. [testng] [2025-01-23 00:56:12,633] [pool-1-thread-10] Initializing /data/imagej/Rat_Hippocampal_Neuron2.zip: [testng] 00:56:12,633 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 00:56:12,633 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:56:12,635 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-01-23_00-56-12.log] [testng] 00:56:12,635 |-INFO in ch.qos.logback.core.sift.SiftProcessor@20c1a759 - End of configuration. [testng] [2025-01-23 00:56:16,392] [pool-1-thread-9] Initializing /data/imagej/mri-stack.zip: [testng] 00:56:16,392 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 00:56:16,393 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:56:16,393 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-01-23_00-56-16.log] [testng] 00:56:16,394 |-INFO in ch.qos.logback.core.sift.SiftProcessor@63d42644 - End of configuration. [testng] [2025-01-23 00:56:18,800] [pool-1-thread-8] Initializing /data/imagej/gel-electrophoresis.zip: [testng] 00:56:18,800 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 00:56:18,800 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:56:18,801 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-01-23_00-56-18.log] [testng] 00:56:18,801 |-INFO in ch.qos.logback.core.sift.SiftProcessor@373b5721 - End of configuration. [testng] [2025-01-23 00:56:22,455] [pool-1-thread-7] Initializing /data/imagej/3D_Chromosome.zip: [testng] 00:56:22,456 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 00:56:22,456 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:56:22,456 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-01-23_00-56-22.log] [testng] 00:56:22,457 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6087b58c - End of configuration. [testng] [2025-01-23 00:56:24,749] [pool-1-thread-6] Initializing /data/imagej/hela-cells.zip: [testng] 00:56:24,750 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 00:56:24,750 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:56:24,750 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-01-23_00-56-24.log] [testng] 00:56:24,751 |-INFO in ch.qos.logback.core.sift.SiftProcessor@75276e2d - End of configuration. [testng] [2025-01-23 00:56:27,952] [pool-1-thread-5] Initializing /data/imagej/FluorescentCells.zip: [testng] 00:56:27,952 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 00:56:27,952 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:56:27,953 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-01-23_00-56-27.log] [testng] 00:56:27,953 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7e4390d3 - End of configuration. [testng] [2025-01-23 00:56:30,405] [pool-1-thread-4] Initializing /data/imagej/flybrain.zip: [testng] 00:56:30,405 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 00:56:30,405 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:56:30,406 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-01-23_00-56-30.log] [testng] 00:56:30,406 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4398f700 - End of configuration. [testng] [2025-01-23 00:56:40,397] [pool-1-thread-3] Initializing /data/imagej/4D-Stack(256x256x20x10).zip: [testng] 00:56:40,397 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 00:56:40,398 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:56:40,399 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-01-23_00-56-40.log] [testng] 00:56:40,399 |-INFO in ch.qos.logback.core.sift.SiftProcessor@439da44d - End of configuration. [testng] [2025-01-23 00:56:50,514] [pool-1-thread-2] Initializing /data/imagej/xrays.zip: [testng] 00:56:50,514 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 00:56:50,515 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:56:50,515 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-01-23_00-56-50.log] [testng] 00:56:50,516 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5dcdc8b2 - End of configuration. [testng] [2025-01-23 00:57:13,897] [pool-1-thread-2] Initializing /data/imagej/confocal-series.zip: [testng] [2025-01-23 00:57:26,220] [pool-1-thread-12] Initializing /data/samples/bat-cochlea-volume.zip: [testng] [2025-01-23 00:57:32,148] [pool-1-thread-9] Initializing /data/imagej/RatBrain.zip: [testng] [2025-01-23 00:57:34,204] [pool-1-thread-11] Initializing /data/imagej/confocal-stack.zip: [testng] [2025-01-23 00:57:45,186] [pool-1-thread-5] Initializing /data/imagej/scala-media.zip: [testng] [2025-01-23 00:57:47,460] [pool-1-thread-7] Initializing /data/imagej/m51.zip: [testng] [2025-01-23 00:58:04,702] [pool-1-thread-6] Initializing /data/imagej/blood-brain-barrier.zip: [testng] [2025-01-23 00:58:14,437] [pool-1-thread-9] Initializing /data/imagej/se3.zip: [testng] [2025-01-23 00:58:21,243] [pool-1-thread-5] Initializing /data/samples/sdub.zip: [testng] [2025-01-23 00:58:21,808] [pool-1-thread-1] Initializing /data/imagej/fat-cells.zip: time="2025-01-23T01:00:29Z" level=error msg="error waiting for container: unexpected EOF" Build step 'Execute shell' marked build as failure Finished: FAILURE