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Started by upstream project "BIOFORMATS-test-repo" build number 293 originally caused by: Started by upstream project "Trigger" build number 312 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/jenkins963475230190341579.sh + '[' pcx = slidebook ']' ++ date +%u + '[' 2 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_46242_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] 00:23:00,740 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 00:23:00,741 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - No custom configurators were discovered as a service. [testng] 00:23:00,741 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:23:00,742 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:23:00,743 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 00:23:00,743 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 00:23:00,744 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 2 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 00:23:00,744 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:23:00,744 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:23:00,745 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 00:23:00,745 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 00:23:00,745 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 00:23:00,918 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 00:23:00,918 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 00:23:00,941 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 00:23:00,941 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 00:23:00,947 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 00:23:00,947 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 00:23:00,947 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 00:23:00,947 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 00:23:00,947 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@45099dd3 - End of configuration. [testng] 00:23:00,948 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@60099951 - Registering current configuration as safe fallback point [testng] 00:23:00,948 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 204 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-12-17 00:23:00,957] [main] java.version = 11.0.16 [testng] 00:23:00,960 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 00:23:00,961 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:23:01,003 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-17_00-23-00.log] [testng] 00:23:01,004 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21be3395 - End of configuration. [testng] [2024-12-17 00:23:01,006] [main] testng.directory = /data [testng] [2024-12-17 00:23:01,006] [main] testng.configDirectory = /config [testng] [2024-12-17 00:23:01,016] [main] testng.multiplier = 1.0 [testng] [2024-12-17 00:23:01,017] [main] testng.in-memory = false [testng] [2024-12-17 00:23:01,017] [main] testng.allow-missing = false [testng] [2024-12-17 00:23:01,018] [main] user.language = en [testng] [2024-12-17 00:23:01,018] [main] user.country = ${user.country} [testng] [2024-12-17 00:23:01,018] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-12-17 00:23:15,516] [main] ---------------------------------------- [testng] [2024-12-17 00:23:15,516] [main] Total files: 36 [testng] [2024-12-17 00:23:15,516] [main] Scan time: 14.498 s (402 ms/file) [testng] [2024-12-17 00:23:15,516] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 35 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-12-17 00:23:33,790] [pool-1-thread-1] Initializing /data/generated/mri-stack22.pcx: [testng] 00:23:33,791 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 00:23:33,792 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:23:33,793 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-17_00-23-33.log] [testng] 00:23:33,794 |-INFO in ch.qos.logback.core.sift.SiftProcessor@25a0292 - End of configuration. [testng] [2024-12-17 00:23:33,859] [pool-1-thread-12] Initializing /data/generated/mri-stack16.pcx: [testng] 00:23:33,860 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 00:23:33,860 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:23:33,861 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-17_00-23-33.log] [testng] 00:23:33,861 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4954ddaa - End of configuration. [testng] [2024-12-17 00:23:33,886] [pool-1-thread-11] Initializing /data/generated/mri-stack3.pcx: [testng] 00:23:33,886 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 00:23:33,886 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:23:33,887 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-17_00-23-33.log] [testng] 00:23:33,887 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3467d1f5 - End of configuration. [testng] [2024-12-17 00:23:33,911] [pool-1-thread-10] Initializing /data/generated/mri-stack6.pcx: [testng] 00:23:33,912 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 00:23:33,912 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:23:33,912 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-17_00-23-33.log] [testng] 00:23:33,913 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7c47a364 - End of configuration. [testng] [2024-12-17 00:23:33,937] [pool-1-thread-9] Initializing /data/generated/mri-stack4.pcx: [testng] 00:23:33,937 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 00:23:33,937 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:23:33,938 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-17_00-23-33.log] [testng] 00:23:33,938 |-INFO in ch.qos.logback.core.sift.SiftProcessor@505501df - End of configuration. [testng] [2024-12-17 00:23:33,959] [pool-1-thread-8] Initializing /data/generated/mri-stack13.pcx: [testng] 00:23:33,959 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 00:23:33,960 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:23:33,960 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-17_00-23-33.log] [testng] 00:23:33,960 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6c50709d - End of configuration. [testng] [2024-12-17 00:23:33,994] [pool-1-thread-7] Initializing /data/generated/mri-stack18.pcx: [testng] 00:23:33,995 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 00:23:33,995 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:23:33,995 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-17_00-23-33.log] [testng] 00:23:33,996 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4b2a2f3a - End of configuration. [testng] [2024-12-17 00:23:34,049] [pool-1-thread-6] Initializing /data/generated/mri-stack14.pcx: [testng] 00:23:34,050 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 00:23:34,050 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:23:34,050 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-17_00-23-34.log] [testng] 00:23:34,050 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2032d1e9 - End of configuration. [testng] [2024-12-17 00:23:34,075] [pool-1-thread-5] Initializing /data/generated/mri-stack26.pcx: [testng] 00:23:34,076 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 00:23:34,076 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:23:34,076 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-17_00-23-34.log] [testng] 00:23:34,077 |-INFO in ch.qos.logback.core.sift.SiftProcessor@56ebccfb - End of configuration. [testng] [2024-12-17 00:23:34,130] [pool-1-thread-4] Initializing /data/josh/Screenshots/nd2 color.pcx: [testng] 00:23:34,131 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 00:23:34,131 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:23:34,131 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-17_00-23-34.log] [testng] 00:23:34,132 |-INFO in ch.qos.logback.core.sift.SiftProcessor@671ff381 - End of configuration. [testng] [2024-12-17 00:23:34,165] [pool-1-thread-3] Initializing /data/generated/mri-stack0.pcx: [testng] 00:23:34,165 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 00:23:34,165 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:23:34,166 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-17_00-23-34.log] [testng] 00:23:34,166 |-INFO in ch.qos.logback.core.sift.SiftProcessor@18d78af2 - End of configuration. [testng] [2024-12-17 00:23:34,210] [pool-1-thread-2] Initializing /data/generated/mri-stack10.pcx: [testng] 00:23:34,210 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 00:23:34,210 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:23:34,210 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-17_00-23-34.log] [testng] 00:23:34,211 |-INFO in ch.qos.logback.core.sift.SiftProcessor@35f8188a - End of configuration. [testng] [2024-12-17 00:23:39,125] [pool-1-thread-12] Initializing /data/generated/mri-stack23.pcx: [testng] [2024-12-17 00:23:39,141] [pool-1-thread-11] Initializing /data/generated/mri-stack5.pcx: [testng] [2024-12-17 00:23:39,157] [pool-1-thread-1] Initializing /data/josh/Screenshots/leica-lif.pcx: [testng] [2024-12-17 00:23:39,184] [pool-1-thread-4] Initializing /data/josh/Screenshots/biorad color off.pcx: [testng] [2024-12-17 00:23:39,240] [pool-1-thread-7] Initializing /data/generated/mri-stack2.pcx: [testng] [2024-12-17 00:23:39,425] [pool-1-thread-8] Initializing /data/josh/Screenshots/fv1000color.pcx: [testng] [2024-12-17 00:23:39,462] [pool-1-thread-10] Initializing /data/josh/Screenshots/deltavision.pcx: [testng] [2024-12-17 00:23:39,500] [pool-1-thread-2] Initializing /data/generated/mri-stack12.pcx: [testng] [2024-12-17 00:23:39,530] [pool-1-thread-9] Initializing /data/generated/mri-stack15.pcx: [testng] [2024-12-17 00:23:39,561] [pool-1-thread-5] Initializing /data/generated/mri-stack7.pcx: [testng] [2024-12-17 00:23:39,604] [pool-1-thread-3] Initializing /data/josh/Screenshots/epscolor.pcx: [testng] [2024-12-17 00:23:39,650] [pool-1-thread-6] Initializing /data/generated/mri-stack19.pcx: [testng] [2024-12-17 00:23:42,571] [pool-1-thread-5] Initializing /data/generated/mri-stack11.pcx: [testng] [2024-12-17 00:23:42,686] [pool-1-thread-7] Initializing /data/generated/mri-stack24.pcx: [testng] [2024-12-17 00:23:42,842] [pool-1-thread-2] Initializing /data/generated/mri-stack1.pcx: [testng] [2024-12-17 00:23:42,945] [pool-1-thread-9] Initializing /data/josh/Screenshots/slidebooksamezposition.pcx: [testng] [2024-12-17 00:23:43,263] [pool-1-thread-6] Initializing /data/generated/mri-stack21.pcx: [testng] [2024-12-17 00:23:43,373] [pool-1-thread-12] Initializing /data/josh/Screenshots/Metamorph image-stack.pcx: [testng] [2024-12-17 00:23:43,393] [pool-1-thread-11] Initializing /data/generated/mri-stack17.pcx: [testng] [2024-12-17 00:23:43,534] [pool-1-thread-3] Initializing /data/generated/mri-stack8.pcx: [testng] [2024-12-17 00:23:43,921] [pool-1-thread-1] Initializing /data/generated/mri-stack25.pcx: [testng] [2024-12-17 00:23:44,040] [pool-1-thread-10] Initializing /data/generated/mri-stack9.pcx: [testng] [2024-12-17 00:23:44,154] [pool-1-thread-4] Initializing /data/generated/mri-stack20.pcx: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1855, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 50 seconds Finished: SUCCESS