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Started by upstream project "BIOFORMATS-test-repo" build number 26 originally caused by: Started by upstream project "Trigger" build number 29 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/jenkins8727900221010031401.sh + '[' pcx = slidebook ']' ++ date +%u + '[' 7 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_3253_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] 01:19:59,055 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 01:19:59,056 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service. [testng] 01:19:59,057 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:19:59,057 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:19:59,058 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:19:59,058 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:19:59,058 |-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] 01:19:59,058 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:19:59,059 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:19:59,059 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:19:59,060 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:19:59,060 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:19:59,217 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:19:59,217 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:19:59,238 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:19:59,239 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:19:59,244 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:19:59,244 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:19:59,244 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:19:59,245 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:19:59,245 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration. [testng] 01:19:59,246 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point [testng] 01:19:59,246 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 187 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-04-07 01:19:59,254] [main] java.version = 17.0.2 [testng] 01:19:59,257 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:19:59,257 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:19:59,296 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-04-07_01-19-59.log] [testng] 01:19:59,297 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration. [testng] [2024-04-07 01:19:59,299] [main] testng.directory = /data [testng] [2024-04-07 01:19:59,299] [main] testng.configDirectory = /config [testng] [2024-04-07 01:19:59,308] [main] testng.multiplier = 1.0 [testng] [2024-04-07 01:19:59,308] [main] testng.in-memory = false [testng] [2024-04-07 01:19:59,308] [main] testng.allow-missing = false [testng] [2024-04-07 01:19:59,308] [main] user.language = en [testng] [2024-04-07 01:19:59,309] [main] user.country = ${user.country} [testng] [2024-04-07 01:19:59,309] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-04-07 01:19:59,727] [main] ---------------------------------------- [testng] [2024-04-07 01:19:59,727] [main] Total files: 36 [testng] [2024-04-07 01:19:59,727] [main] Scan time: 0.418 s (11 ms/file) [testng] [2024-04-07 01:19:59,727] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 35 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-04-07 01:20:00,957] [pool-1-thread-1] Initializing /data/generated/mri-stack25.pcx: [testng] 01:20:00,957 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:20:00,957 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:20:00,958 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-04-07_01-20-00.log] [testng] 01:20:00,958 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1f1071f2 - End of configuration. [testng] [2024-04-07 01:20:01,004] [pool-1-thread-12] Initializing /data/generated/mri-stack24.pcx: [testng] 01:20:01,004 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:20:01,005 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:20:01,006 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-04-07_01-20-01.log] [testng] 01:20:01,006 |-INFO in ch.qos.logback.core.sift.SiftProcessor@46b5cbbc - End of configuration. [testng] [2024-04-07 01:20:01,010] [pool-1-thread-11] Initializing /data/generated/mri-stack17.pcx: [testng] 01:20:01,010 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:20:01,010 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:20:01,011 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-04-07_01-20-01.log] [testng] 01:20:01,011 |-INFO in ch.qos.logback.core.sift.SiftProcessor@71162a61 - End of configuration. [testng] [2024-04-07 01:20:01,016] [pool-1-thread-10] Initializing /data/generated/mri-stack16.pcx: [testng] 01:20:01,016 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:20:01,016 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:20:01,016 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-04-07_01-20-01.log] [testng] 01:20:01,017 |-INFO in ch.qos.logback.core.sift.SiftProcessor@39ae5535 - End of configuration. [testng] [2024-04-07 01:20:01,021] [pool-1-thread-9] Initializing /data/generated/mri-stack20.pcx: [testng] 01:20:01,021 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:20:01,021 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:20:01,022 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-04-07_01-20-01.log] [testng] 01:20:01,022 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7beb973d - End of configuration. [testng] [2024-04-07 01:20:01,027] [pool-1-thread-8] Initializing /data/josh/Screenshots/biorad color off.pcx: [testng] 01:20:01,027 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:20:01,028 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:20:01,028 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-04-07_01-20-01.log] [testng] 01:20:01,029 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1fa6bb43 - End of configuration. [testng] [2024-04-07 01:20:01,037] [pool-1-thread-7] Initializing /data/generated/mri-stack6.pcx: [testng] 01:20:01,037 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:20:01,037 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:20:01,038 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-04-07_01-20-01.log] [testng] 01:20:01,038 |-INFO in ch.qos.logback.core.sift.SiftProcessor@64a0f473 - End of configuration. [testng] [2024-04-07 01:20:01,042] [pool-1-thread-6] Initializing /data/josh/Screenshots/Metamorph image-stack.pcx: [testng] 01:20:01,043 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:20:01,043 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:20:01,043 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-04-07_01-20-01.log] [testng] 01:20:01,044 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3aa4df47 - End of configuration. [testng] [2024-04-07 01:20:01,052] [pool-1-thread-5] Initializing /data/josh/Screenshots/deltavision.pcx: [testng] 01:20:01,053 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:20:01,053 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:20:01,053 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-04-07_01-20-01.log] [testng] 01:20:01,054 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6b12ea97 - End of configuration. [testng] [2024-04-07 01:20:01,062] [pool-1-thread-4] Initializing /data/josh/Screenshots/fv1000color.pcx: [testng] 01:20:01,063 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:20:01,063 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:20:01,064 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-04-07_01-20-01.log] [testng] 01:20:01,064 |-INFO in ch.qos.logback.core.sift.SiftProcessor@365b870d - End of configuration. [testng] [2024-04-07 01:20:01,073] [pool-1-thread-3] Initializing /data/generated/mri-stack12.pcx: [testng] 01:20:01,074 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:20:01,074 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:20:01,075 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-04-07_01-20-01.log] [testng] 01:20:01,075 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2f115d20 - End of configuration. [testng] [2024-04-07 01:20:01,079] [pool-1-thread-2] Initializing /data/generated/mri-stack23.pcx: [testng] 01:20:01,080 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:20:01,080 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:20:01,080 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-04-07_01-20-01.log] [testng] 01:20:01,081 |-INFO in ch.qos.logback.core.sift.SiftProcessor@69b41ea6 - End of configuration. [testng] [2024-04-07 01:20:03,199] [pool-1-thread-2] Initializing /data/generated/mri-stack11.pcx: [testng] [2024-04-07 01:20:03,203] [pool-1-thread-10] Initializing /data/generated/mri-stack7.pcx: [testng] [2024-04-07 01:20:03,207] [pool-1-thread-3] Initializing /data/generated/mri-stack4.pcx: [testng] [2024-04-07 01:20:03,211] [pool-1-thread-9] Initializing /data/generated/mri-stack3.pcx: [testng] [2024-04-07 01:20:03,214] [pool-1-thread-1] Initializing /data/generated/mri-stack19.pcx: [testng] [2024-04-07 01:20:03,217] [pool-1-thread-11] Initializing /data/generated/mri-stack2.pcx: [testng] [2024-04-07 01:20:03,221] [pool-1-thread-7] Initializing /data/generated/mri-stack1.pcx: [testng] [2024-04-07 01:20:03,224] [pool-1-thread-12] Initializing /data/generated/mri-stack15.pcx: [testng] [2024-04-07 01:20:03,228] [pool-1-thread-4] Initializing /data/generated/mri-stack14.pcx: [testng] [2024-04-07 01:20:03,231] [pool-1-thread-8] Initializing /data/generated/mri-stack26.pcx: [testng] [2024-04-07 01:20:03,234] [pool-1-thread-5] Initializing /data/generated/mri-stack10.pcx: [testng] [2024-04-07 01:20:03,237] [pool-1-thread-6] Initializing /data/josh/Screenshots/slidebooksamezposition.pcx: [testng] [2024-04-07 01:20:03,460] [pool-1-thread-12] Initializing /data/generated/mri-stack0.pcx: [testng] [2024-04-07 01:20:03,463] [pool-1-thread-9] Initializing /data/josh/Screenshots/epscolor.pcx: [testng] [2024-04-07 01:20:03,468] [pool-1-thread-10] Initializing /data/generated/mri-stack8.pcx: [testng] [2024-04-07 01:20:03,472] [pool-1-thread-4] Initializing /data/generated/mri-stack18.pcx: [testng] [2024-04-07 01:20:03,475] [pool-1-thread-3] Initializing /data/josh/Screenshots/leica-lif.pcx: [testng] [2024-04-07 01:20:03,507] [pool-1-thread-2] Initializing /data/generated/mri-stack9.pcx: [testng] [2024-04-07 01:20:03,535] [pool-1-thread-7] Initializing /data/generated/mri-stack5.pcx: [testng] [2024-04-07 01:20:03,542] [pool-1-thread-11] Initializing /data/generated/mri-stack22.pcx: [testng] [2024-04-07 01:20:03,545] [pool-1-thread-8] Initializing /data/generated/mri-stack21.pcx: [testng] [2024-04-07 01:20:03,549] [pool-1-thread-5] Initializing /data/generated/mri-stack13.pcx: [testng] [2024-04-07 01:20:03,563] [pool-1-thread-1] 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: 7 seconds Finished: SUCCESS