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Started by upstream project "BIOFORMATS-test-repo" build number 295 originally caused by: Started by upstream project "Trigger" build number 314 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@5 [BIOFORMATS-test-folder@5] $ /bin/bash -xe /tmp/jenkins15700525156190438774.sh + '[' improvision = slidebook ']' ++ date +%u + '[' 4 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_46621_merge_ci -v /uod/idr/repos/curated/improvision:/data -v /uod/idr-scratch/merge-ci/curated/improvision:/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warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] warning: [options] source value 8 is obsolete and will be removed in a future release [javac] warning: [options] target value 8 is obsolete and will be removed in a future release [javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options. [javac] 4 warnings 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] 00:56:12,142 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 00:56:12,144 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - No custom configurators were discovered as a service. [testng] 00:56:12,144 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:56:12,145 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:56:12,145 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 00:56:12,145 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 00:56:12,146 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 00:56:12,146 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:56:12,146 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:56:12,147 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 00:56:12,147 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 00:56:12,147 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 00:56:12,301 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 00:56:12,301 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 00:56:12,325 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 00:56:12,325 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 00:56:12,331 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 00:56:12,331 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 00:56:12,331 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 00:56:12,332 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 00:56:12,332 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@29215f06 - End of configuration. [testng] 00:56:12,333 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@b9b00e0 - Registering current configuration as safe fallback point [testng] 00:56:12,333 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 187 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-12-19 00:56:12,342] [main] java.version = 21 [testng] 00:56:12,345 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 00:56:12,345 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:56:12,385 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-19_00-56-12.log] [testng] 00:56:12,386 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1b919693 - End of configuration. [testng] [2024-12-19 00:56:12,388] [main] testng.directory = /data [testng] [2024-12-19 00:56:12,388] [main] testng.configDirectory = /config [testng] [2024-12-19 00:56:12,396] [main] testng.multiplier = 1.0 [testng] [2024-12-19 00:56:12,397] [main] testng.in-memory = false [testng] [2024-12-19 00:56:12,397] [main] testng.allow-missing = false [testng] [2024-12-19 00:56:12,397] [main] user.language = en [testng] [2024-12-19 00:56:12,397] [main] user.country = ${user.country} [testng] [2024-12-19 00:56:12,397] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-12-19 00:56:13,290] [main] ---------------------------------------- [testng] [2024-12-19 00:56:13,290] [main] Total files: 9 [testng] [2024-12-19 00:56:13,290] [main] Scan time: 0.893 s (99 ms/file) [testng] [2024-12-19 00:56:13,290] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 9 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-12-19 00:56:29,358] [pool-1-thread-1] Initializing /data/karsten/Spiro.tiff: [testng] 00:56:29,359 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 00:56:29,359 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:56:29,361 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-19_00-56-29.log] [testng] 00:56:29,361 |-INFO in ch.qos.logback.core.sift.SiftProcessor@45d6ecc0 - End of configuration. [testng] [2024-12-19 00:56:30,486] [pool-1-thread-9] Initializing /data/karsten/Vessels FP grey.tif: [testng] 00:56:30,486 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 00:56:30,487 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:56:30,488 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-19_00-56-30.log] [testng] 00:56:30,488 |-INFO in ch.qos.logback.core.sift.SiftProcessor@14f1e626 - End of configuration. [testng] [2024-12-19 00:56:31,442] [pool-1-thread-8] Initializing /data/karsten/Vessels eight-bit grey.tif: [testng] 00:56:31,443 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 00:56:31,443 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:56:31,444 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-19_00-56-31.log] [testng] 00:56:31,444 |-INFO in ch.qos.logback.core.sift.SiftProcessor@758ead1 - End of configuration. [testng] [2024-12-19 00:56:31,810] [pool-1-thread-7] Initializing /data/jcb/Figure 1Ci-iv/T00001C01Z001.tif: [testng] 00:56:31,811 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 00:56:31,811 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:56:31,811 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-19_00-56-31.log] [testng] 00:56:31,812 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2bc39050 - End of configuration. [testng] [2024-12-19 00:56:35,238] [pool-1-thread-6] Initializing /data/karsten/Vessels 16bit grey.tif: [testng] 00:56:35,239 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 00:56:35,239 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:56:35,240 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-19_00-56-35.log] [testng] 00:56:35,240 |-INFO in ch.qos.logback.core.sift.SiftProcessor@ba8dee0 - End of configuration. [testng] [2024-12-19 00:56:35,528] [pool-1-thread-5] Initializing /data/karsten/Vessels 32-bit Col.tif: [testng] 00:56:35,529 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 00:56:35,529 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:56:35,529 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-19_00-56-35.log] [testng] 00:56:35,530 |-INFO in ch.qos.logback.core.sift.SiftProcessor@46ccc08a - End of configuration. [testng] [2024-12-19 00:56:35,868] [pool-1-thread-4] Initializing /data/karsten/Vessels 48bit Col.tif: [testng] 00:56:35,868 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 00:56:35,868 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:56:35,869 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-19_00-56-35.log] [testng] 00:56:35,869 |-INFO in ch.qos.logback.core.sift.SiftProcessor@44ad95a8 - End of configuration. [testng] [2024-12-19 00:56:36,203] [pool-1-thread-3] Initializing /data/karsten/Vessels 1bit.tif: [testng] 00:56:36,203 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 00:56:36,203 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:56:36,204 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-19_00-56-36.log] [testng] 00:56:36,204 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1699b7a6 - End of configuration. [testng] [2024-12-19 00:56:36,561] [pool-1-thread-2] Initializing /data/chris/Fig 4A copy.tif: [testng] 00:56:36,561 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 00:56:36,561 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:56:36,562 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-19_00-56-36.log] [testng] 00:56:36,562 |-INFO in ch.qos.logback.core.sift.SiftProcessor@704e4f8 - End of configuration. time="2024-12-19T01:00:55Z" level=error msg="error waiting for container: unexpected EOF" Build step 'Execute shell' marked build as failure Finished: FAILURE