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Started by upstream project "BIOFORMATS-test-repo" build number 47 originally caused by: Started by upstream project "Trigger" build number 54 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/jenkins3168151429060433612.sh + '[' pcx = slidebook ']' ++ date +%u + '[' 7 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_6698_merge_ci -v /uod/idr/repos/curated/pcx:/data -v /uod/idr-scratch/merge-ci/curated/pcx:/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] 1 warning 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] 01:20:19,664 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 01:20:19,665 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service. [testng] 01:20:19,665 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:20:19,666 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:20:19,667 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:20:19,667 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:20:19,667 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 01:20:19,667 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:20:19,668 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:20:19,668 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:20:19,668 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:20:19,669 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:20:19,830 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:20:19,830 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:20:19,852 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:20:19,852 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:20:19,857 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:20:19,857 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:20:19,857 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:20:19,858 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:20:19,858 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration. [testng] 01:20:19,859 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point [testng] 01:20:19,859 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 191 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-04-28 01:20:19,867] [main] java.version = 17.0.2 [testng] 01:20:19,870 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:20:19,870 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:20:19,910 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-04-28_01-20-19.log] [testng] 01:20:19,911 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration. [testng] [2024-04-28 01:20:19,913] [main] testng.directory = /data [testng] [2024-04-28 01:20:19,914] [main] testng.configDirectory = /config [testng] [2024-04-28 01:20:19,922] [main] testng.multiplier = 1.0 [testng] [2024-04-28 01:20:19,923] [main] testng.in-memory = false [testng] [2024-04-28 01:20:19,923] [main] testng.allow-missing = false [testng] [2024-04-28 01:20:19,923] [main] user.language = en [testng] [2024-04-28 01:20:19,923] [main] user.country = ${user.country} [testng] [2024-04-28 01:20:19,923] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-04-28 01:20:20,330] [main] ---------------------------------------- [testng] [2024-04-28 01:20:20,330] [main] Total files: 36 [testng] [2024-04-28 01:20:20,330] [main] Scan time: 0.406 s (11 ms/file) [testng] [2024-04-28 01:20:20,330] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 35 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-04-28 01:20:22,094] [pool-1-thread-1] Initializing /data/generated/mri-stack25.pcx: [testng] 01:20:22,094 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:20:22,095 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:20:22,095 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-04-28_01-20-22.log] [testng] 01:20:22,096 |-INFO in ch.qos.logback.core.sift.SiftProcessor@35dab48e - End of configuration. [testng] [2024-04-28 01:20:22,161] [pool-1-thread-12] Initializing /data/generated/mri-stack24.pcx: [testng] 01:20:22,162 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:20:22,162 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:20:22,163 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-04-28_01-20-22.log] [testng] 01:20:22,164 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1784737c - End of configuration. [testng] [2024-04-28 01:20:22,171] [pool-1-thread-11] Initializing /data/generated/mri-stack17.pcx: [testng] 01:20:22,171 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:20:22,171 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:20:22,172 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-04-28_01-20-22.log] [testng] 01:20:22,172 |-INFO in ch.qos.logback.core.sift.SiftProcessor@74045161 - End of configuration. [testng] [2024-04-28 01:20:22,178] [pool-1-thread-10] Initializing /data/generated/mri-stack16.pcx: [testng] 01:20:22,178 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:20:22,178 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:20:22,179 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-04-28_01-20-22.log] [testng] 01:20:22,179 |-INFO in ch.qos.logback.core.sift.SiftProcessor@72d88b07 - End of configuration. [testng] [2024-04-28 01:20:22,186] [pool-1-thread-9] Initializing /data/generated/mri-stack20.pcx: [testng] 01:20:22,186 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:20:22,186 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:20:22,187 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-04-28_01-20-22.log] [testng] 01:20:22,187 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3e20d3c9 - End of configuration. [testng] [2024-04-28 01:20:22,194] [pool-1-thread-8] Initializing /data/josh/Screenshots/biorad color off.pcx: [testng] 01:20:22,194 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:20:22,194 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:20:22,195 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-04-28_01-20-22.log] [testng] 01:20:22,195 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5c1019ec - End of configuration. [testng] [2024-04-28 01:20:22,207] [pool-1-thread-7] Initializing /data/generated/mri-stack6.pcx: [testng] 01:20:22,208 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:20:22,208 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:20:22,209 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-04-28_01-20-22.log] [testng] 01:20:22,209 |-INFO in ch.qos.logback.core.sift.SiftProcessor@25b88d92 - End of configuration. [testng] [2024-04-28 01:20:22,216] [pool-1-thread-6] Initializing /data/josh/Screenshots/Metamorph image-stack.pcx: [testng] 01:20:22,216 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:20:22,216 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:20:22,217 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-04-28_01-20-22.log] [testng] 01:20:22,217 |-INFO in ch.qos.logback.core.sift.SiftProcessor@d67eb11 - End of configuration. [testng] [2024-04-28 01:20:22,227] [pool-1-thread-5] Initializing /data/josh/Screenshots/deltavision.pcx: [testng] 01:20:22,228 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:20:22,229 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:20:22,236 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-04-28_01-20-22.log] [testng] 01:20:22,237 |-INFO in ch.qos.logback.core.sift.SiftProcessor@64a0f473 - End of configuration. [testng] [2024-04-28 01:20:22,248] [pool-1-thread-4] Initializing /data/josh/Screenshots/fv1000color.pcx: [testng] 01:20:22,248 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:20:22,248 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:20:22,249 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-04-28_01-20-22.log] [testng] 01:20:22,249 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6e4b1267 - End of configuration. [testng] [2024-04-28 01:20:22,259] [pool-1-thread-3] Initializing /data/generated/mri-stack12.pcx: [testng] 01:20:22,260 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:20:22,260 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:20:22,261 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-04-28_01-20-22.log] [testng] 01:20:22,261 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3aa4df47 - End of configuration. [testng] [2024-04-28 01:20:22,267] [pool-1-thread-2] Initializing /data/generated/mri-stack23.pcx: [testng] 01:20:22,267 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:20:22,267 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:20:22,268 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-04-28_01-20-22.log] [testng] 01:20:22,269 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6b12ea97 - End of configuration. [testng] [2024-04-28 01:20:24,679] [pool-1-thread-1] Initializing /data/generated/mri-stack11.pcx: [testng] [2024-04-28 01:20:24,683] [pool-1-thread-10] Initializing /data/generated/mri-stack7.pcx: [testng] [2024-04-28 01:20:24,686] [pool-1-thread-9] Initializing /data/generated/mri-stack4.pcx: [testng] [2024-04-28 01:20:24,690] [pool-1-thread-3] Initializing /data/generated/mri-stack3.pcx: [testng] [2024-04-28 01:20:24,694] [pool-1-thread-12] Initializing /data/generated/mri-stack19.pcx: [testng] [2024-04-28 01:20:24,699] [pool-1-thread-2] Initializing /data/generated/mri-stack2.pcx: [testng] [2024-04-28 01:20:24,704] [pool-1-thread-7] Initializing /data/generated/mri-stack1.pcx: [testng] [2024-04-28 01:20:24,708] [pool-1-thread-11] Initializing /data/generated/mri-stack15.pcx: [testng] [2024-04-28 01:20:24,712] [pool-1-thread-6] Initializing /data/generated/mri-stack14.pcx: [testng] [2024-04-28 01:20:24,715] [pool-1-thread-8] Initializing /data/generated/mri-stack26.pcx: [testng] [2024-04-28 01:20:24,718] [pool-1-thread-5] Initializing /data/generated/mri-stack10.pcx: [testng] [2024-04-28 01:20:24,721] [pool-1-thread-4] Initializing /data/josh/Screenshots/slidebooksamezposition.pcx: [testng] [2024-04-28 01:20:24,932] [pool-1-thread-3] Initializing /data/generated/mri-stack0.pcx: [testng] [2024-04-28 01:20:24,936] [pool-1-thread-6] Initializing /data/generated/mri-stack18.pcx: [testng] [2024-04-28 01:20:24,939] [pool-1-thread-10] Initializing /data/josh/Screenshots/leica-lif.pcx: [testng] [2024-04-28 01:20:24,965] [pool-1-thread-8] Initializing /data/generated/mri-stack8.pcx: [testng] [2024-04-28 01:20:24,969] [pool-1-thread-12] Initializing /data/josh/Screenshots/epscolor.pcx: [testng] [2024-04-28 01:20:25,027] [pool-1-thread-1] Initializing /data/generated/mri-stack9.pcx: [testng] [2024-04-28 01:20:25,031] [pool-1-thread-5] Initializing /data/generated/mri-stack22.pcx: [testng] [2024-04-28 01:20:25,035] [pool-1-thread-9] Initializing /data/generated/mri-stack21.pcx: [testng] [2024-04-28 01:20:25,039] [pool-1-thread-2] Initializing /data/generated/mri-stack5.pcx: [testng] [2024-04-28 01:20:25,067] [pool-1-thread-11] Initializing /data/generated/mri-stack13.pcx: [testng] [2024-04-28 01:20:25,073] [pool-1-thread-7] Initializing /data/josh/Screenshots/nd2 color.pcx: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1855, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 8 seconds Finished: SUCCESS