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Started by upstream project "BIOFORMATS-test-repo" build number 243 originally caused by: Started by user devspace 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/jenkins13370725355753822225.sh + '[' pcx = slidebook ']' ++ date +%u + '[' 6 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_38169_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] WARNING: An illegal reflective access operation has occurred [testng] WARNING: Illegal reflective access by org.kohsuke.file_leak_detector.Listener (file:/home/build/.m2/repository/org/kohsuke/file-leak-detector/1.18/file-leak-detector-1.18-jar-with-dependencies.jar) to field java.net.SocketImpl.socket [testng] WARNING: Please consider reporting this to the maintainers of org.kohsuke.file_leak_detector.Listener [testng] WARNING: Use --illegal-access=warn to enable warnings of further illegal reflective access operations [testng] WARNING: All illegal access operations will be denied in a future release [testng] File leak detector installed [testng] 13:59:36,433 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 13:59:36,435 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - No custom configurators were discovered as a service. [testng] 13:59:36,435 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 13:59:36,436 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 13:59:36,436 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 13:59:36,437 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 13:59:36,437 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 13:59:36,437 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 13:59:36,437 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 13:59:36,438 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 13:59:36,438 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 13:59:36,439 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 13:59:36,615 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 13:59:36,615 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 13:59:36,640 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 13:59:36,641 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 13:59:36,647 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 13:59:36,647 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 13:59:36,648 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 13:59:36,648 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 13:59:36,648 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@45099dd3 - End of configuration. [testng] 13:59:36,649 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@60099951 - Registering current configuration as safe fallback point [testng] 13:59:36,649 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 212 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-11-02 13:59:36,659] [main] java.version = 11.0.16 [testng] 13:59:36,662 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 13:59:36,662 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:59:36,705 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-02_13-59-36.log] [testng] 13:59:36,707 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21be3395 - End of configuration. [testng] [2024-11-02 13:59:36,709] [main] testng.directory = /data [testng] [2024-11-02 13:59:36,709] [main] testng.configDirectory = /config [testng] [2024-11-02 13:59:36,719] [main] testng.multiplier = 1.0 [testng] [2024-11-02 13:59:36,720] [main] testng.in-memory = false [testng] [2024-11-02 13:59:36,721] [main] testng.allow-missing = false [testng] [2024-11-02 13:59:36,721] [main] user.language = en [testng] [2024-11-02 13:59:36,721] [main] user.country = ${user.country} [testng] [2024-11-02 13:59:36,721] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-11-02 13:59:37,528] [main] ---------------------------------------- [testng] [2024-11-02 13:59:37,528] [main] Total files: 36 [testng] [2024-11-02 13:59:37,528] [main] Scan time: 0.807 s (22 ms/file) [testng] [2024-11-02 13:59:37,528] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 35 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-11-02 13:59:38,947] [pool-1-thread-1] Initializing /data/generated/mri-stack25.pcx: [testng] 13:59:38,947 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 13:59:38,948 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:59:38,949 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-11-02_13-59-38.log] [testng] 13:59:38,950 |-INFO in ch.qos.logback.core.sift.SiftProcessor@64c5ac47 - End of configuration. [testng] [2024-11-02 13:59:39,002] [pool-1-thread-12] Initializing /data/generated/mri-stack26.pcx: [testng] 13:59:39,002 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 13:59:39,002 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:59:39,003 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-11-02_13-59-39.log] [testng] 13:59:39,003 |-INFO in ch.qos.logback.core.sift.SiftProcessor@54a9556d - End of configuration. [testng] [2024-11-02 13:59:39,013] [pool-1-thread-11] Initializing /data/generated/mri-stack19.pcx: [testng] 13:59:39,013 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 13:59:39,013 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:59:39,014 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-11-02_13-59-39.log] [testng] 13:59:39,014 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2bda9005 - End of configuration. [testng] [2024-11-02 13:59:39,023] [pool-1-thread-10] Initializing /data/generated/mri-stack6.pcx: [testng] 13:59:39,024 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 13:59:39,024 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:59:39,024 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-11-02_13-59-39.log] [testng] 13:59:39,025 |-INFO in ch.qos.logback.core.sift.SiftProcessor@668bb69b - End of configuration. [testng] [2024-11-02 13:59:39,033] [pool-1-thread-9] Initializing /data/generated/mri-stack9.pcx: [testng] 13:59:39,034 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 13:59:39,034 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:59:39,034 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-11-02_13-59-39.log] [testng] 13:59:39,035 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7ea901f - End of configuration. [testng] [2024-11-02 13:59:39,044] [pool-1-thread-8] Initializing /data/generated/mri-stack7.pcx: [testng] 13:59:39,045 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 13:59:39,045 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:59:39,045 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-11-02_13-59-39.log] [testng] 13:59:39,045 |-INFO in ch.qos.logback.core.sift.SiftProcessor@b17f7ea - End of configuration. [testng] [2024-11-02 13:59:39,054] [pool-1-thread-7] Initializing /data/generated/mri-stack16.pcx: [testng] 13:59:39,054 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 13:59:39,054 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:59:39,055 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-11-02_13-59-39.log] [testng] 13:59:39,055 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2af77d17 - End of configuration. [testng] [2024-11-02 13:59:39,063] [pool-1-thread-6] Initializing /data/generated/mri-stack20.pcx: [testng] 13:59:39,064 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 13:59:39,064 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:59:39,064 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-11-02_13-59-39.log] [testng] 13:59:39,065 |-INFO in ch.qos.logback.core.sift.SiftProcessor@65f17f60 - End of configuration. [testng] [2024-11-02 13:59:39,072] [pool-1-thread-5] Initializing /data/generated/mri-stack17.pcx: [testng] 13:59:39,073 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 13:59:39,073 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:59:39,073 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-11-02_13-59-39.log] [testng] 13:59:39,073 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6f00b979 - End of configuration. [testng] [2024-11-02 13:59:39,081] [pool-1-thread-4] Initializing /data/generated/mri-stack5.pcx: [testng] 13:59:39,082 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 13:59:39,082 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:59:39,082 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-11-02_13-59-39.log] [testng] 13:59:39,083 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7fb72601 - End of configuration. [testng] [2024-11-02 13:59:39,091] [pool-1-thread-3] Initializing /data/generated/mri-stack11.pcx: [testng] 13:59:39,091 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 13:59:39,091 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:59:39,092 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-11-02_13-59-39.log] [testng] 13:59:39,092 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1b12466c - End of configuration. [testng] [2024-11-02 13:59:39,100] [pool-1-thread-2] Initializing /data/generated/mri-stack13.pcx: [testng] 13:59:39,100 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 13:59:39,100 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:59:39,101 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-11-02_13-59-39.log] [testng] 13:59:39,101 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7cc25ff0 - End of configuration. [testng] [2024-11-02 13:59:41,865] [pool-1-thread-5] Initializing /data/generated/mri-stack21.pcx: [testng] [2024-11-02 13:59:41,873] [pool-1-thread-1] Initializing /data/generated/mri-stack0.pcx: [testng] [2024-11-02 13:59:41,881] [pool-1-thread-3] Initializing /data/generated/mri-stack1.pcx: [testng] [2024-11-02 13:59:41,889] [pool-1-thread-4] Initializing /data/josh/Screenshots/fv1000color.pcx: [testng] [2024-11-02 13:59:41,898] [pool-1-thread-2] Initializing /data/generated/mri-stack22.pcx: [testng] [2024-11-02 13:59:41,905] [pool-1-thread-8] Initializing /data/generated/mri-stack10.pcx: [testng] [2024-11-02 13:59:41,911] [pool-1-thread-12] Initializing /data/josh/Screenshots/slidebooksamezposition.pcx: [testng] [2024-11-02 13:59:41,921] [pool-1-thread-6] Initializing /data/josh/Screenshots/leica-lif.pcx: [testng] [2024-11-02 13:59:41,931] [pool-1-thread-10] Initializing /data/generated/mri-stack15.pcx: [testng] [2024-11-02 13:59:41,941] [pool-1-thread-9] Initializing /data/generated/mri-stack18.pcx: [testng] [2024-11-02 13:59:41,962] [pool-1-thread-7] Initializing /data/josh/Screenshots/Metamorph image-stack.pcx: [testng] [2024-11-02 13:59:41,973] [pool-1-thread-11] Initializing /data/josh/Screenshots/nd2 color.pcx: [testng] [2024-11-02 13:59:42,625] [pool-1-thread-2] Initializing /data/generated/mri-stack8.pcx: [testng] [2024-11-02 13:59:42,632] [pool-1-thread-5] Initializing /data/generated/mri-stack12.pcx: [testng] [2024-11-02 13:59:42,643] [pool-1-thread-8] Initializing /data/generated/mri-stack14.pcx: [testng] [2024-11-02 13:59:42,654] [pool-1-thread-10] Initializing /data/generated/mri-stack2.pcx: [testng] [2024-11-02 13:59:42,665] [pool-1-thread-9] Initializing /data/generated/mri-stack3.pcx: [testng] [2024-11-02 13:59:42,690] [pool-1-thread-3] Initializing /data/josh/Screenshots/epscolor.pcx: [testng] [2024-11-02 13:59:42,734] [pool-1-thread-1] Initializing /data/generated/mri-stack24.pcx: [testng] [2024-11-02 13:59:43,147] [pool-1-thread-5] Initializing /data/josh/Screenshots/biorad color off.pcx: [testng] [2024-11-02 13:59:43,199] [pool-1-thread-9] Initializing /data/generated/mri-stack4.pcx: [testng] [2024-11-02 13:59:43,216] [pool-1-thread-10] Initializing /data/josh/Screenshots/deltavision.pcx: [testng] [2024-11-02 13:59:43,247] [pool-1-thread-2] Initializing /data/generated/mri-stack23.pcx: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1855, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 10 seconds Finished: SUCCESS