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Started by upstream project "BIOFORMATS-test-repo" build number 270 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/jenkins13014031331686143850.sh + '[' pcx = slidebook ']' ++ date +%u + '[' 3 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_42597_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] 11:36:34,894 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 11:36:34,895 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - No custom configurators were discovered as a service. [testng] 11:36:34,895 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 11:36:34,896 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 11:36:34,897 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 11:36:34,898 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 11:36:34,898 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 2 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 11:36:34,898 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 11:36:34,899 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 11:36:34,899 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 11:36:34,900 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 11:36:34,900 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 11:36:35,170 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 11:36:35,170 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 11:36:35,196 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 11:36:35,196 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 11:36:35,214 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 11:36:35,214 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 11:36:35,215 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 11:36:35,215 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 11:36:35,215 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2e3967ea - End of configuration. [testng] 11:36:35,216 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@2e6a8155 - Registering current configuration as safe fallback point [testng] 11:36:35,216 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 317 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-11-27 11:36:35,226] [main] java.version = 17.0.2 [testng] 11:36:35,230 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 11:36:35,230 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:36:35,390 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-27_11-36-35.log] [testng] 11:36:35,392 |-INFO in ch.qos.logback.core.sift.SiftProcessor@798162bc - End of configuration. [testng] [2024-11-27 11:36:35,450] [main] testng.directory = /data [testng] [2024-11-27 11:36:35,451] [main] testng.configDirectory = /config [testng] [2024-11-27 11:36:35,847] [main] testng.multiplier = 1.0 [testng] [2024-11-27 11:36:35,848] [main] testng.in-memory = false [testng] [2024-11-27 11:36:35,848] [main] testng.allow-missing = false [testng] [2024-11-27 11:36:35,848] [main] user.language = en [testng] [2024-11-27 11:36:35,848] [main] user.country = ${user.country} [testng] [2024-11-27 11:36:35,848] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-11-27 11:36:37,361] [main] ---------------------------------------- [testng] [2024-11-27 11:36:37,361] [main] Total files: 36 [testng] [2024-11-27 11:36:37,361] [main] Scan time: 1.513 s (42 ms/file) [testng] [2024-11-27 11:36:37,361] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 35 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-11-27 11:36:39,040] [pool-1-thread-1] Initializing /data/generated/mri-stack15.pcx: [testng] 11:36:39,040 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 11:36:39,041 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:36:39,042 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-11-27_11-36-39.log] [testng] 11:36:39,042 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7883e2de - End of configuration. [testng] [2024-11-27 11:36:39,114] [pool-1-thread-12] Initializing /data/generated/mri-stack6.pcx: [testng] 11:36:39,114 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 11:36:39,115 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:36:39,116 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-11-27_11-36-39.log] [testng] 11:36:39,116 |-INFO in ch.qos.logback.core.sift.SiftProcessor@300d87e3 - End of configuration. [testng] [2024-11-27 11:36:39,137] [pool-1-thread-11] Initializing /data/josh/Screenshots/leica-lif.pcx: [testng] 11:36:39,137 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 11:36:39,137 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:36:39,138 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-11-27_11-36-39.log] [testng] 11:36:39,138 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4c938ac8 - End of configuration. [testng] [2024-11-27 11:36:39,154] [pool-1-thread-10] Initializing /data/generated/mri-stack14.pcx: [testng] 11:36:39,154 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 11:36:39,154 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:36:39,155 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-11-27_11-36-39.log] [testng] 11:36:39,155 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21368e1c - End of configuration. [testng] [2024-11-27 11:36:39,170] [pool-1-thread-9] Initializing /data/generated/mri-stack10.pcx: [testng] 11:36:39,170 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 11:36:39,170 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:36:39,171 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-11-27_11-36-39.log] [testng] 11:36:39,172 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6323a76a - End of configuration. [testng] [2024-11-27 11:36:39,186] [pool-1-thread-8] Initializing /data/generated/mri-stack24.pcx: [testng] 11:36:39,186 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 11:36:39,186 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:36:39,187 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-11-27_11-36-39.log] [testng] 11:36:39,187 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4b50e03f - End of configuration. [testng] [2024-11-27 11:36:39,201] [pool-1-thread-7] Initializing /data/generated/mri-stack2.pcx: [testng] 11:36:39,201 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 11:36:39,201 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:36:39,202 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-11-27_11-36-39.log] [testng] 11:36:39,202 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5cd238e3 - End of configuration. [testng] [2024-11-27 11:36:39,220] [pool-1-thread-6] Initializing /data/josh/Screenshots/epscolor.pcx: [testng] 11:36:39,220 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 11:36:39,220 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:36:39,221 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-11-27_11-36-39.log] [testng] 11:36:39,221 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5a3b5a4b - End of configuration. [testng] [2024-11-27 11:36:39,238] [pool-1-thread-5] Initializing /data/generated/mri-stack23.pcx: [testng] 11:36:39,238 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 11:36:39,238 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:36:39,239 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-11-27_11-36-39.log] [testng] 11:36:39,239 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7b85bc85 - End of configuration. [testng] [2024-11-27 11:36:39,254] [pool-1-thread-4] Initializing /data/generated/mri-stack25.pcx: [testng] 11:36:39,254 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 11:36:39,254 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:36:39,255 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-11-27_11-36-39.log] [testng] 11:36:39,255 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5c320cb1 - End of configuration. [testng] [2024-11-27 11:36:39,269] [pool-1-thread-3] Initializing /data/generated/mri-stack3.pcx: [testng] 11:36:39,269 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 11:36:39,270 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:36:39,270 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-11-27_11-36-39.log] [testng] 11:36:39,271 |-INFO in ch.qos.logback.core.sift.SiftProcessor@75f9f6ef - End of configuration. [testng] [2024-11-27 11:36:39,281] [pool-1-thread-2] Initializing /data/generated/mri-stack13.pcx: [testng] 11:36:39,281 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 11:36:39,282 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:36:39,282 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-11-27_11-36-39.log] [testng] 11:36:39,283 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6dcfaadf - End of configuration. [testng] [2024-11-27 11:36:42,812] [pool-1-thread-2] Initializing /data/josh/Screenshots/fv1000color.pcx: [testng] [2024-11-27 11:36:42,833] [pool-1-thread-6] Initializing /data/josh/Screenshots/slidebooksamezposition.pcx: [testng] [2024-11-27 11:36:42,857] [pool-1-thread-3] Initializing /data/generated/mri-stack4.pcx: [testng] [2024-11-27 11:36:42,878] [pool-1-thread-5] Initializing /data/josh/Screenshots/nd2 color.pcx: [testng] [2024-11-27 11:36:42,902] [pool-1-thread-8] Initializing /data/generated/mri-stack20.pcx: [testng] [2024-11-27 11:36:42,919] [pool-1-thread-1] Initializing /data/generated/mri-stack18.pcx: [testng] [2024-11-27 11:36:42,933] [pool-1-thread-4] Initializing /data/generated/mri-stack17.pcx: [testng] [2024-11-27 11:36:42,949] [pool-1-thread-11] Initializing /data/generated/mri-stack9.pcx: [testng] [2024-11-27 11:36:42,963] [pool-1-thread-9] Initializing /data/generated/mri-stack0.pcx: [testng] [2024-11-27 11:36:42,977] [pool-1-thread-12] Initializing /data/generated/mri-stack7.pcx: [testng] [2024-11-27 11:36:42,991] [pool-1-thread-10] Initializing /data/generated/mri-stack1.pcx: [testng] [2024-11-27 11:36:43,010] [pool-1-thread-7] Initializing /data/generated/mri-stack16.pcx: [testng] [2024-11-27 11:36:44,255] [pool-1-thread-10] Initializing /data/generated/mri-stack8.pcx: [testng] [2024-11-27 11:36:44,335] [pool-1-thread-11] Initializing /data/josh/Screenshots/biorad color off.pcx: [testng] [2024-11-27 11:36:44,348] [pool-1-thread-8] Initializing /data/generated/mri-stack22.pcx: [testng] [2024-11-27 11:36:44,360] [pool-1-thread-4] Initializing /data/josh/Screenshots/Metamorph image-stack.pcx: [testng] [2024-11-27 11:36:44,375] [pool-1-thread-12] Initializing /data/generated/mri-stack26.pcx: [testng] [2024-11-27 11:36:44,387] [pool-1-thread-7] Initializing /data/generated/mri-stack21.pcx: [testng] [2024-11-27 11:36:44,401] [pool-1-thread-9] Initializing /data/josh/Screenshots/deltavision.pcx: [testng] [2024-11-27 11:36:44,431] [pool-1-thread-1] Initializing /data/generated/mri-stack19.pcx: [testng] [2024-11-27 11:36:44,532] [pool-1-thread-3] Initializing /data/generated/mri-stack11.pcx: [testng] [2024-11-27 11:36:45,007] [pool-1-thread-10] Initializing /data/generated/mri-stack12.pcx: [testng] [2024-11-27 11:36:45,120] [pool-1-thread-6] Initializing /data/generated/mri-stack5.pcx: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1855, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 21 seconds Finished: SUCCESS