Started by upstream project "BIOFORMATS-test-repo" build number 207
originally caused by:
Started by upstream project "Trigger" build number 233
originally caused by:
Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@8
[BIOFORMATS-test-folder@8] $ /bin/bash -xe /tmp/jenkins233529931635072633.sh
+ '[' incell = slidebook ']'
++ date +%u
+ '[' 3 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_32900_merge_ci -v /uod/idr/repos/curated/incell:/data -v /uod/idr-scratch/merge-ci/curated/incell:/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] 07:20:18,338 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 07:20:18,340 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service.
[testng] 07:20:18,340 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 07:20:18,340 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 07:20:18,341 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 07:20:18,341 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 07:20:18,341 |-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] 07:20:18,341 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 07:20:18,342 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 07:20:18,342 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 07:20:18,343 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 07:20:18,343 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 07:20:18,495 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 07:20:18,495 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 07:20:18,515 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 07:20:18,515 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 07:20:18,520 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 07:20:18,520 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 07:20:18,520 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 07:20:18,521 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 07:20:18,521 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration.
[testng] 07:20:18,521 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point
[testng] 07:20:18,521 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 179 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-10-02 07:20:18,530] [main] java.version = 17.0.2
[testng] 07:20:18,533 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 07:20:18,533 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 07:20:18,571 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-02_07-20-18.log]
[testng] 07:20:18,572 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration.
[testng] [2024-10-02 07:20:18,574] [main] testng.directory = /data
[testng] [2024-10-02 07:20:18,574] [main] testng.configDirectory = /config
[testng] [2024-10-02 07:20:18,582] [main] testng.multiplier = 1.0
[testng] [2024-10-02 07:20:18,583] [main] testng.in-memory = false
[testng] [2024-10-02 07:20:18,583] [main] testng.allow-missing = false
[testng] [2024-10-02 07:20:18,583] [main] user.language = en
[testng] [2024-10-02 07:20:18,583] [main] user.country = ${user.country}
[testng] [2024-10-02 07:20:18,583] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-10-02 07:56:16,318] [main] ----------------------------------------
[testng] [2024-10-02 07:56:16,319] [main] Total files: 4190
[testng] [2024-10-02 07:56:16,319] [main] Scan time: 2157.735 s (514 ms/file)
[testng] [2024-10-02 07:56:16,319] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 27 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-10-02 07:57:18,259] [pool-1-thread-1] Initializing /data/frans/incell_25juni2009/Experiment_with_3_plates_as_IM/2009_97_238_IM/2009_97_238_IM.xdce:
[testng] 07:57:18,259 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 07:57:18,259 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 07:57:18,260 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-02_07-57-18.log]
[testng] 07:57:18,261 |-INFO in ch.qos.logback.core.sift.SiftProcessor@347b5bc1 - End of configuration.
[testng] [2024-10-02 07:57:18,580] [pool-1-thread-12] Initializing /data/frans/incell_25juni2009/ANALYZE files/plaat HR 38/txt en XML output file/HCT116_HR2009.97.038/HCT116_HR2009.97.038.xdce:
[testng] 07:57:18,581 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 07:57:18,581 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 07:57:18,582 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-10-02_07-57-18.log]
[testng] 07:57:18,582 |-INFO in ch.qos.logback.core.sift.SiftProcessor@9b38b68 - End of configuration.
[testng] [2024-10-02 07:57:19,242] [pool-1-thread-11] Initializing /data/brian/2Hour10x/H2b2Hour10x5fields.xdce:
[testng] 07:57:19,242 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 07:57:19,242 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 07:57:19,243 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-10-02_07-57-19.log]
[testng] 07:57:19,243 |-INFO in ch.qos.logback.core.sift.SiftProcessor@62d56af0 - End of configuration.
[testng] [2024-10-02 07:57:20,641] [pool-1-thread-10] Initializing /data/brian/livecell/H2b10xtrial.xdce:
[testng] 07:57:20,641 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 07:57:20,641 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 07:57:20,642 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-02_07-57-20.log]
[testng] 07:57:20,642 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6273729e - End of configuration.
[testng] [2024-10-02 07:57:21,314] [pool-1-thread-9] Initializing /data/michael/firstStack/2007.07.05.17.33.35.xdce:
[testng] 07:57:21,314 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 07:57:21,314 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 07:57:21,315 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-02_07-57-21.log]
[testng] 07:57:21,315 |-INFO in ch.qos.logback.core.sift.SiftProcessor@9d96f50 - End of configuration.
[testng] [2024-10-02 07:57:21,772] [pool-1-thread-8] Initializing /data/frans/incell_25juni2009/Experiment_with_3_plates_as_Tif/ER2009_97_240_TIFF/PC3_ER2009.97.240(ok).xdce:
[testng] 07:57:21,773 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 07:57:21,773 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 07:57:21,774 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-02_07-57-21.log]
[testng] 07:57:21,774 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6fb33997 - End of configuration.
[testng] [2024-10-02 07:57:22,502] [pool-1-thread-7] Initializing /data/public/idr0017/2011-11-17_X-Man_LOPAC_X01_LP_S01_1/2011-11-17 X-Man LOPAC_X03_LP_S01_1.xdce:
[testng] 07:57:22,502 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 07:57:22,502 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 07:57:22,503 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-02_07-57-22.log]
[testng] 07:57:22,503 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5fdc25e8 - End of configuration.
[testng] [2024-10-02 07:57:23,160] [pool-1-thread-6] Initializing /data/michael/2007.08.02.16.43.24/2007.08.02.16.43.24.xdce:
[testng] 07:57:23,160 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 07:57:23,160 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 07:57:23,161 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-02_07-57-23.log]
[testng] 07:57:23,161 |-INFO in ch.qos.logback.core.sift.SiftProcessor@565d9092 - End of configuration.
[testng] [2024-10-02 07:57:24,168] [pool-1-thread-5] Initializing /data/michael/Z Sections with flatfield corr/2007.10.17.17.13.59.xdce:
[testng] 07:57:24,168 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 07:57:24,168 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 07:57:24,168 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-02_07-57-24.log]
[testng] 07:57:24,169 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7db5b5a2 - End of configuration.
[testng] [2024-10-02 07:57:25,275] [pool-1-thread-4] Initializing /data/samples/variable-field-count/test.xdce:
[testng] 07:57:25,275 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 07:57:25,275 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 07:57:25,276 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-02_07-57-25.log]
[testng] 07:57:25,276 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5a40d5d7 - End of configuration.
[testng] [2024-10-02 07:57:26,247] [pool-1-thread-3] Initializing /data/frans/incell_25juni2009/ANALYZE files/plaat HR 38/excel output file/HCT116_HR2009.97.038/HCT116_HR2009.97.038.xdce:
[testng] 07:57:26,247 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 07:57:26,247 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 07:57:26,247 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-02_07-57-26.log]
[testng] 07:57:26,248 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7632489f - End of configuration.
[testng] [2024-10-02 07:57:27,207] [pool-1-thread-2] Initializing /data/public/INMAC384-DAPI-CM-eGFP_59223_1/INMAC384-DAPI-CM-eGFP_59223_1.xdce:
[testng] 07:57:27,207 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 07:57:27,207 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 07:57:27,208 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-02_07-57-27.log]
[testng] 07:57:27,208 |-INFO in ch.qos.logback.core.sift.SiftProcessor@bbdfc49 - End of configuration.
[testng] [2024-10-02 07:58:11,659] [pool-1-thread-4] Initializing /data/frans/incell_25juni2009/Experiment_with_3_plates_as_IM/2009_97_239_IM/2009_97_239_IM.xdce:
[testng] [2024-10-02 08:01:00,898] [pool-1-thread-9] Initializing /data/brian/H2Blivecell20x/H2Blivecell20x.xdce:
[testng] [2024-10-02 08:14:03,690] [pool-1-thread-6] Initializing /data/damir/20x Z1 16fields Gr Rd DAPI Cy5_140610-3_fix_2.xdce:
[testng] [2024-10-02 08:14:37,183] [pool-1-thread-1] Initializing /data/karsten/gabriele_-1_2/gabriele_-1_2.xdce:
[testng] [2024-10-02 08:15:34,314] [pool-1-thread-4] Initializing /data/frans/incell_25juni2009/Experiment_with_3_plates_as_IM/2009_97_240_IM/2009_97_240_IM.xdce:
[testng] [2024-10-02 08:15:39,638] [pool-1-thread-5] Initializing /data/samples/images_number_mismatch/test.xdce:
[testng] [2024-10-02 08:16:07,158] [pool-1-thread-5] Initializing /data/frans/incell_25juni2009/ANALYZE files/plaat HR37/excel output file/HCT116_HR2009.97.037/HCT116_HR2009.97.037.xdce:
[testng] [2024-10-02 08:16:47,680] [pool-1-thread-1] Initializing /data/frans/im dataset/PC3_ER2009.97.180_IM.xdce:
FATAL: command execution failed
java.nio.channels.ClosedChannelException
at org.jenkinsci.remoting.protocol.impl.ChannelApplicationLayer.onReadClosed(ChannelApplicationLayer.java:241)
at org.jenkinsci.remoting.protocol.ApplicationLayer.onRecvClosed(ApplicationLayer.java:221)
at org.jenkinsci.remoting.protocol.ProtocolStack$Ptr.onRecvClosed(ProtocolStack.java:825)
at org.jenkinsci.remoting.protocol.FilterLayer.onRecvClosed(FilterLayer.java:289)
at org.jenkinsci.remoting.protocol.impl.SSLEngineFilterLayer.onRecvClosed(SSLEngineFilterLayer.java:177)
at org.jenkinsci.remoting.protocol.impl.SSLEngineFilterLayer.switchToNoSecure(SSLEngineFilterLayer.java:279)
at org.jenkinsci.remoting.protocol.impl.SSLEngineFilterLayer.processWrite(SSLEngineFilterLayer.java:501)
at org.jenkinsci.remoting.protocol.impl.SSLEngineFilterLayer.processQueuedWrites(SSLEngineFilterLayer.java:244)
at org.jenkinsci.remoting.protocol.impl.SSLEngineFilterLayer.doSend(SSLEngineFilterLayer.java:196)
at org.jenkinsci.remoting.protocol.impl.SSLEngineFilterLayer.doCloseSend(SSLEngineFilterLayer.java:209)
at org.jenkinsci.remoting.protocol.ProtocolStack$Ptr.doCloseSend(ProtocolStack.java:793)
at org.jenkinsci.remoting.protocol.ApplicationLayer.doCloseWrite(ApplicationLayer.java:172)
at org.jenkinsci.remoting.protocol.impl.ChannelApplicationLayer$ByteBufferCommandTransport.closeWrite(ChannelApplicationLayer.java:343)
at hudson.remoting.Channel.close(Channel.java:1497)
at hudson.remoting.Channel.close(Channel.java:1450)
at hudson.slaves.SlaveComputer.closeChannel(SlaveComputer.java:943)
at hudson.slaves.SlaveComputer.kill(SlaveComputer.java:909)
at hudson.model.AbstractCIBase.killComputer(AbstractCIBase.java:97)
at jenkins.model.Jenkins.lambda$_cleanUpDisconnectComputers$11(Jenkins.java:3785)
at hudson.model.Queue._withLock(Queue.java:1401)
at hudson.model.Queue.withLock(Queue.java:1275)
at jenkins.model.Jenkins._cleanUpDisconnectComputers(Jenkins.java:3781)
at jenkins.model.Jenkins.cleanUp(Jenkins.java:3662)
at hudson.WebAppMain.contextDestroyed(WebAppMain.java:374)
at org.eclipse.jetty.server.handler.ContextHandler.callContextDestroyed(ContextHandler.java:1059)
at org.eclipse.jetty.servlet.ServletContextHandler.callContextDestroyed(ServletContextHandler.java:636)
at org.eclipse.jetty.server.handler.ContextHandler.contextDestroyed(ContextHandler.java:1016)
at org.eclipse.jetty.servlet.ServletHandler.doStop(ServletHandler.java:306)
at org.eclipse.jetty.util.component.AbstractLifeCycle.stop(AbstractLifeCycle.java:132)
at org.eclipse.jetty.util.component.ContainerLifeCycle.stop(ContainerLifeCycle.java:182)
at org.eclipse.jetty.util.component.ContainerLifeCycle.doStop(ContainerLifeCycle.java:205)
at org.eclipse.jetty.server.handler.AbstractHandler.doStop(AbstractHandler.java:97)
at org.eclipse.jetty.security.SecurityHandler.doStop(SecurityHandler.java:412)
at org.eclipse.jetty.security.ConstraintSecurityHandler.doStop(ConstraintSecurityHandler.java:413)
at org.eclipse.jetty.util.component.AbstractLifeCycle.stop(AbstractLifeCycle.java:132)
at org.eclipse.jetty.util.component.ContainerLifeCycle.stop(ContainerLifeCycle.java:182)
at org.eclipse.jetty.util.component.ContainerLifeCycle.doStop(ContainerLifeCycle.java:205)
at org.eclipse.jetty.server.handler.AbstractHandler.doStop(AbstractHandler.java:97)
at org.eclipse.jetty.server.session.SessionHandler.doStop(SessionHandler.java:497)
at org.eclipse.jetty.util.component.AbstractLifeCycle.stop(AbstractLifeCycle.java:132)
at org.eclipse.jetty.util.component.ContainerLifeCycle.stop(ContainerLifeCycle.java:182)
at org.eclipse.jetty.util.component.ContainerLifeCycle.doStop(ContainerLifeCycle.java:205)
at org.eclipse.jetty.server.handler.AbstractHandler.doStop(AbstractHandler.java:97)
at org.eclipse.jetty.server.handler.ContextHandler.stopContext(ContextHandler.java:1039)
at org.eclipse.jetty.servlet.ServletContextHandler.stopContext(ServletContextHandler.java:399)
at org.eclipse.jetty.webapp.WebAppContext.stopContext(WebAppContext.java:1311)
at org.eclipse.jetty.server.handler.ContextHandler.doStop(ContextHandler.java:1087)
at org.eclipse.jetty.servlet.ServletContextHandler.doStop(ServletContextHandler.java:312)
at org.eclipse.jetty.util.component.AbstractLifeCycle.stop(AbstractLifeCycle.java:132)
at org.eclipse.jetty.util.component.ContainerLifeCycle.stop(ContainerLifeCycle.java:182)
at org.eclipse.jetty.util.component.ContainerLifeCycle.doStop(ContainerLifeCycle.java:205)
at org.eclipse.jetty.server.handler.AbstractHandler.doStop(AbstractHandler.java:97)
at org.eclipse.jetty.server.Server.doStop(Server.java:517)
at org.eclipse.jetty.util.component.AbstractLifeCycle.stop(AbstractLifeCycle.java:132)
at winstone.Launcher.shutdown(Launcher.java:442)
at winstone.ShutdownHook.run(ShutdownHook.java:28)
Caused: java.io.IOException: Backing channel 'JNLP4-connect connection from merge-ci-docker-1.merge-ci_omero-network/172.18.0.3:45366' is disconnected.
at hudson.remoting.RemoteInvocationHandler.channelOrFail(RemoteInvocationHandler.java:215)
at hudson.remoting.RemoteInvocationHandler.invoke(RemoteInvocationHandler.java:285)
at jdk.proxy2/jdk.proxy2.$Proxy188.isAlive(Unknown Source)
at hudson.Launcher$RemoteLauncher$ProcImpl.isAlive(Launcher.java:1212)
at hudson.Launcher$RemoteLauncher$ProcImpl.join(Launcher.java:1204)
at hudson.tasks.CommandInterpreter.join(CommandInterpreter.java:195)
at hudson.tasks.CommandInterpreter.perform(CommandInterpreter.java:145)
at hudson.tasks.CommandInterpreter.perform(CommandInterpreter.java:92)
at hudson.tasks.BuildStepMonitor$1.perform(BuildStepMonitor.java:20)
at hudson.model.AbstractBuild$AbstractBuildExecution.perform(AbstractBuild.java:818)
at hudson.model.Build$BuildExecution.build(Build.java:199)
at hudson.model.Build$BuildExecution.doRun(Build.java:164)
at hudson.model.AbstractBuild$AbstractBuildExecution.run(AbstractBuild.java:526)
at hudson.model.Run.execute(Run.java:1895)
at hudson.model.FreeStyleBuild.run(FreeStyleBuild.java:44)
at hudson.model.ResourceController.execute(ResourceController.java:101)
at hudson.model.Executor.run(Executor.java:442)
FATAL: Unable to delete script file /tmp/jenkins233529931635072633.sh
java.nio.channels.ClosedChannelException
at org.jenkinsci.remoting.protocol.impl.ChannelApplicationLayer.onReadClosed(ChannelApplicationLayer.java:241)
at org.jenkinsci.remoting.protocol.ApplicationLayer.onRecvClosed(ApplicationLayer.java:221)
at org.jenkinsci.remoting.protocol.ProtocolStack$Ptr.onRecvClosed(ProtocolStack.java:825)
at org.jenkinsci.remoting.protocol.FilterLayer.onRecvClosed(FilterLayer.java:289)
at org.jenkinsci.remoting.protocol.impl.SSLEngineFilterLayer.onRecvClosed(SSLEngineFilterLayer.java:177)
at org.jenkinsci.remoting.protocol.impl.SSLEngineFilterLayer.switchToNoSecure(SSLEngineFilterLayer.java:279)
at org.jenkinsci.remoting.protocol.impl.SSLEngineFilterLayer.processWrite(SSLEngineFilterLayer.java:501)
at org.jenkinsci.remoting.protocol.impl.SSLEngineFilterLayer.processQueuedWrites(SSLEngineFilterLayer.java:244)
at org.jenkinsci.remoting.protocol.impl.SSLEngineFilterLayer.doSend(SSLEngineFilterLayer.java:196)
at org.jenkinsci.remoting.protocol.impl.SSLEngineFilterLayer.doCloseSend(SSLEngineFilterLayer.java:209)
at org.jenkinsci.remoting.protocol.ProtocolStack$Ptr.doCloseSend(ProtocolStack.java:793)
at org.jenkinsci.remoting.protocol.ApplicationLayer.doCloseWrite(ApplicationLayer.java:172)
at org.jenkinsci.remoting.protocol.impl.ChannelApplicationLayer$ByteBufferCommandTransport.closeWrite(ChannelApplicationLayer.java:343)
at hudson.remoting.Channel.close(Channel.java:1497)
at hudson.remoting.Channel.close(Channel.java:1450)
at hudson.slaves.SlaveComputer.closeChannel(SlaveComputer.java:943)
at hudson.slaves.SlaveComputer.kill(SlaveComputer.java:909)
at hudson.model.AbstractCIBase.killComputer(AbstractCIBase.java:97)
at jenkins.model.Jenkins.lambda$_cleanUpDisconnectComputers$11(Jenkins.java:3785)
at hudson.model.Queue._withLock(Queue.java:1401)
at hudson.model.Queue.withLock(Queue.java:1275)
at jenkins.model.Jenkins._cleanUpDisconnectComputers(Jenkins.java:3781)
at jenkins.model.Jenkins.cleanUp(Jenkins.java:3662)
at hudson.WebAppMain.contextDestroyed(WebAppMain.java:374)
at org.eclipse.jetty.server.handler.ContextHandler.callContextDestroyed(ContextHandler.java:1059)
at org.eclipse.jetty.servlet.ServletContextHandler.callContextDestroyed(ServletContextHandler.java:636)
at org.eclipse.jetty.server.handler.ContextHandler.contextDestroyed(ContextHandler.java:1016)
at org.eclipse.jetty.servlet.ServletHandler.doStop(ServletHandler.java:306)
at org.eclipse.jetty.util.component.AbstractLifeCycle.stop(AbstractLifeCycle.java:132)
at org.eclipse.jetty.util.component.ContainerLifeCycle.stop(ContainerLifeCycle.java:182)
at org.eclipse.jetty.util.component.ContainerLifeCycle.doStop(ContainerLifeCycle.java:205)
at org.eclipse.jetty.server.handler.AbstractHandler.doStop(AbstractHandler.java:97)
at org.eclipse.jetty.security.SecurityHandler.doStop(SecurityHandler.java:412)
at org.eclipse.jetty.security.ConstraintSecurityHandler.doStop(ConstraintSecurityHandler.java:413)
at org.eclipse.jetty.util.component.AbstractLifeCycle.stop(AbstractLifeCycle.java:132)
at org.eclipse.jetty.util.component.ContainerLifeCycle.stop(ContainerLifeCycle.java:182)
at org.eclipse.jetty.util.component.ContainerLifeCycle.doStop(ContainerLifeCycle.java:205)
at org.eclipse.jetty.server.handler.AbstractHandler.doStop(AbstractHandler.java:97)
at org.eclipse.jetty.server.session.SessionHandler.doStop(SessionHandler.java:497)
at org.eclipse.jetty.util.component.AbstractLifeCycle.stop(AbstractLifeCycle.java:132)
at org.eclipse.jetty.util.component.ContainerLifeCycle.stop(ContainerLifeCycle.java:182)
at org.eclipse.jetty.util.component.ContainerLifeCycle.doStop(ContainerLifeCycle.java:205)
at org.eclipse.jetty.server.handler.AbstractHandler.doStop(AbstractHandler.java:97)
at org.eclipse.jetty.server.handler.ContextHandler.stopContext(ContextHandler.java:1039)
at org.eclipse.jetty.servlet.ServletContextHandler.stopContext(ServletContextHandler.java:399)
at org.eclipse.jetty.webapp.WebAppContext.stopContext(WebAppContext.java:1311)
at org.eclipse.jetty.server.handler.ContextHandler.doStop(ContextHandler.java:1087)
at org.eclipse.jetty.servlet.ServletContextHandler.doStop(ServletContextHandler.java:312)
at org.eclipse.jetty.util.component.AbstractLifeCycle.stop(AbstractLifeCycle.java:132)
at org.eclipse.jetty.util.component.ContainerLifeCycle.stop(ContainerLifeCycle.java:182)
at org.eclipse.jetty.util.component.ContainerLifeCycle.doStop(ContainerLifeCycle.java:205)
at org.eclipse.jetty.server.handler.AbstractHandler.doStop(AbstractHandler.java:97)
at org.eclipse.jetty.server.Server.doStop(Server.java:517)
at org.eclipse.jetty.util.component.AbstractLifeCycle.stop(AbstractLifeCycle.java:132)
at winstone.Launcher.shutdown(Launcher.java:442)
at winstone.ShutdownHook.run(ShutdownHook.java:28)
Caused: hudson.remoting.ChannelClosedException: Channel "hudson.remoting.Channel@d0b6132:JNLP4-connect connection from merge-ci-docker-1.merge-ci_omero-network/172.18.0.3:45366": Remote call on JNLP4-connect connection from merge-ci-docker-1.merge-ci_omero-network/172.18.0.3:45366 failed. The channel is closing down or has closed down
at hudson.remoting.Channel.call(Channel.java:996)
at hudson.FilePath.act(FilePath.java:1230)
at hudson.FilePath.act(FilePath.java:1219)
at hudson.FilePath.delete(FilePath.java:1766)
at hudson.tasks.CommandInterpreter.perform(CommandInterpreter.java:163)
at hudson.tasks.CommandInterpreter.perform(CommandInterpreter.java:92)
at hudson.tasks.BuildStepMonitor$1.perform(BuildStepMonitor.java:20)
at hudson.model.AbstractBuild$AbstractBuildExecution.perform(AbstractBuild.java:818)
at hudson.model.Build$BuildExecution.build(Build.java:199)
at hudson.model.Build$BuildExecution.doRun(Build.java:164)
at hudson.model.AbstractBuild$AbstractBuildExecution.run(AbstractBuild.java:526)
at hudson.model.Run.execute(Run.java:1895)
at hudson.model.FreeStyleBuild.run(FreeStyleBuild.java:44)
at hudson.model.ResourceController.execute(ResourceController.java:101)
at hudson.model.Executor.run(Executor.java:442)
Build step 'Execute shell' marked build as failure
Finished: FAILURE