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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@2 [BIOFORMATS-test-folder@2] $ /bin/bash -xe /tmp/jenkins2906759299086288471.sh + '[' zeiss-tiff = slidebook ']' ++ date +%u + '[' 3 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_32909_merge_ci -v /uod/idr/repos/curated/zeiss-tiff:/data -v /uod/idr-scratch/merge-ci/curated/zeiss-tiff:/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] 07:54:30,773 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 07:54:30,775 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service. [testng] 07:54:30,775 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 07:54:30,776 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 07:54:30,777 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 07:54:30,777 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 07:54:30,778 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 2 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 07:54:30,778 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 07:54:30,778 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 07:54:30,779 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 07:54:30,780 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 07:54:30,780 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 07:54:30,961 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 07:54:30,961 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 07:54:30,983 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 07:54:30,984 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 07:54:30,990 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 07:54:30,991 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 07:54:30,991 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 07:54:30,991 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 07:54:30,992 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration. [testng] 07:54:30,993 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point [testng] 07:54:30,993 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 215 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-10-02 07:54:31,005] [main] java.version = 17.0.2 [testng] 07:54:31,010 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 07:54:31,010 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:54:31,069 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-02_07-54-31.log] [testng] 07:54:31,071 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration. [testng] [2024-10-02 07:54:31,074] [main] testng.directory = /data [testng] [2024-10-02 07:54:31,074] [main] testng.configDirectory = /config [testng] [2024-10-02 07:54:31,082] [main] testng.multiplier = 1.0 [testng] [2024-10-02 07:54:31,083] [main] testng.in-memory = false [testng] [2024-10-02 07:54:31,084] [main] testng.allow-missing = false [testng] [2024-10-02 07:54:31,084] [main] user.language = en [testng] [2024-10-02 07:54:31,084] [main] user.country = ${user.country} [testng] [2024-10-02 07:54:31,084] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-10-02 07:56:24,522] [main] ---------------------------------------- [testng] [2024-10-02 07:56:24,523] [main] Total files: 15735 [testng] [2024-10-02 07:56:24,523] [main] Scan time: 113.438 s (7 ms/file) [testng] [2024-10-02 07:56:24,523] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 125 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-10-02 07:59:34,501] [pool-1-thread-1] Initializing /data/converted/vladan/vladan.tif: [testng] 07:59:34,501 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 07:59:34,501 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:59:34,502 |-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_07-59-34.log] [testng] 07:59:34,503 |-INFO in ch.qos.logback.core.sift.SiftProcessor@77d2faf8 - End of configuration. [testng] [2024-10-02 07:59:35,882] [pool-1-thread-12] Initializing /data/converted/gaetan/gml16_cenp-fitc_dapi_16.tif: [testng] 07:59:35,882 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 07:59:35,882 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:59:35,883 |-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_07-59-35.log] [testng] 07:59:35,883 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3dd5303b - End of configuration. [testng] [2024-10-02 07:59:37,945] [pool-1-thread-11] Initializing /data/converted/converted/mri-stack.tif: [testng] 07:59:37,945 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 07:59:37,945 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:59:37,946 |-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_07-59-37.log] [testng] 07:59:37,947 |-INFO in ch.qos.logback.core.sift.SiftProcessor@709f47a3 - End of configuration. [testng] [2024-10-02 07:59:39,159] [pool-1-thread-10] Initializing /data/converted/jonas/10_0907_multidrug-0001_AB01_03.tif: [testng] 07:59:39,159 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 07:59:39,159 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:59:39,160 |-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_07-59-39.log] [testng] 07:59:39,160 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4392ffdd - End of configuration. [testng] [2024-10-02 07:59:40,872] [pool-1-thread-9] Initializing /data/converted/karsten/Bild1.tif: [testng] 07:59:40,873 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 07:59:40,873 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:59:40,873 |-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_07-59-40.log] [testng] 07:59:40,874 |-INFO in ch.qos.logback.core.sift.SiftProcessor@422e31b8 - End of configuration. [testng] [2024-10-02 07:59:41,767] [pool-1-thread-8] Initializing /data/converted/markus/VivaTome_sample/cell 40 w raw fast-widefield.tif: [testng] 07:59:41,767 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 07:59:41,767 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:59:41,768 |-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_07-59-41.log] [testng] 07:59:41,768 |-INFO in ch.qos.logback.core.sift.SiftProcessor@17678eb1 - End of configuration. [testng] [2024-10-02 07:59:42,924] [pool-1-thread-7] Initializing /data/converted/gaetan/gml16_cenp-fitc_dapi_9.tif: [testng] 07:59:42,924 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 07:59:42,924 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:59:42,925 |-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_07-59-42.log] [testng] 07:59:42,925 |-INFO in ch.qos.logback.core.sift.SiftProcessor@9af37a3 - End of configuration. [testng] [2024-10-02 07:59:44,523] [pool-1-thread-6] Initializing /data/converted/stephan/notok1.tif: [testng] 07:59:44,524 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 07:59:44,524 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:59:44,524 |-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_07-59-44.log] [testng] 07:59:44,525 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7fffc0a7 - End of configuration. [testng] [2024-10-02 07:59:45,821] [pool-1-thread-5] Initializing /data/converted/eirinn/demo-tile.tif: [testng] 07:59:45,821 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 07:59:45,821 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:59:45,822 |-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_07-59-45.log] [testng] 07:59:45,822 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4d4a0b9b - End of configuration. [testng] [2024-10-02 07:59:47,259] [pool-1-thread-4] Initializing /data/qa-21570/250618_J1_diff_D3-2-0002.tif: [testng] 07:59:47,259 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 07:59:47,259 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:59:47,260 |-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_07-59-47.log] [testng] 07:59:47,260 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4bf0eb93 - End of configuration. [testng] [2024-10-02 07:59:48,499] [pool-1-thread-3] Initializing /data/converted/michel/d.tif: [testng] 07:59:48,499 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 07:59:48,499 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:59:48,500 |-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_07-59-48.log] [testng] 07:59:48,500 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4daf266f - End of configuration. [testng] [2024-10-02 07:59:50,121] [pool-1-thread-2] Initializing /data/converted/gaetan/gml16_cenp-fitc_dapi_6.tif: [testng] 07:59:50,122 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 07:59:50,122 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:59:50,122 |-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_07-59-50.log] [testng] 07:59:50,122 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4494f4e5 - End of configuration. [testng] [2024-10-02 08:00:24,997] [pool-1-thread-11] Initializing /data/converted/dietmar/hmads-bac1-bac7-af488-rho-af647_pre-2006-03-30-0016.tif: [testng] [2024-10-02 08:00:27,073] [pool-1-thread-4] Initializing /data/converted/stephan/notok2.tif: [testng] [2024-10-02 08:00:36,818] [pool-1-thread-3] Initializing /data/converted/ville/MultiCh-RGB/pollen_rgb.tif: [testng] [2024-10-02 08:00:39,857] [pool-1-thread-9] Initializing /data/converted/gaetan/gml16_cenp-fitc_dapi_2.tif: [testng] [2024-10-02 08:00:46,405] [pool-1-thread-5] Initializing /data/converted/markus/Smart_Experiment_4ch-T-time-stitched.tif: [testng] [2024-10-02 08:01:12,450] [pool-1-thread-3] Initializing /data/converted/karsten/Bild2.tif: [testng] [2024-10-02 08:02:00,424] [pool-1-thread-3] Initializing /data/converted/kelsey/650x514BW.tif: [testng] [2024-10-02 08:02:11,466] [pool-1-thread-6] Initializing /data/converted/monica/Monica_elegans_movie.tif: [testng] [2024-10-02 08:02:30,165] [pool-1-thread-3] Initializing /data/converted/eirinn/11_10_2009-01-lcstim-15-10-09_position(1).tif: [testng] [2024-10-02 08:02:39,210] [pool-1-thread-4] Initializing /data/converted/michel/c.tif: [testng] [2024-10-02 08:03:23,451] [pool-1-thread-4] Initializing /data/converted/darren/section0002_w1.tif: [testng] [2024-10-02 08:03:50,362] [pool-1-thread-11] Initializing /data/converted/dietmar/hmads-bac1-bac7-af488-rho-af647_pre-2006-03-30-ten.tif: [testng] [2024-10-02 08:03:56,009] [pool-1-thread-4] Initializing /data/converted/eirinn/12_16_2009-01-tara-hd-triple-5to15_position(1)5.tif: [testng] [2024-10-02 08:06:58,532] [pool-1-thread-1] Initializing /data/converted/eirinn/pharm3-saline2-0147_11.tif: [testng] [2024-10-02 08:07:11,760] [pool-1-thread-3] Initializing /data/converted/lior/live+cf2b.tif: [testng] [2024-10-02 08:08:43,616] [pool-1-thread-3] Initializing /data/converted/rolf/example_2-2010_11_25.tif: [testng] [2024-10-02 08:09:28,419] [pool-1-thread-2] Initializing /data/converted/markus/Material_color_image_HRc_microscanned_4x3K.tif: [testng] [2024-10-02 08:09:31,103] [pool-1-thread-3] Initializing /data/converted/rachel/40K 30s A1.tif: [testng] [2024-10-02 08:09:43,874] [pool-1-thread-7] Initializing /data/converted/rolf/example_1-2010_11_25.tif: [testng] [2024-10-02 08:09:50,885] [pool-1-thread-11] Initializing /data/converted/strand/2Colors1Plane.tif: [testng] [2024-10-02 08:10:07,725] [pool-1-thread-2] Initializing /data/converted/dietmar/hmads-bac1-bac7-af488-rho-af647_pre-2006-03-30-six.tif: [testng] [2024-10-02 08:10:16,667] [pool-1-thread-3] Initializing /data/converted/gaetan/gml16_cenp-fitc_dapi_25.tif: [testng] [2024-10-02 08:10:19,117] [pool-1-thread-9] Initializing /data/converted/eirinn/12_2_2009-16-hes5-brdu-proper_position(52).tif: [testng] [2024-10-02 08:10:21,321] [pool-1-thread-7] Initializing /data/converted/gaetan/gml16_cenp-fitc_dapi_4.tif: [testng] [2024-10-02 08:10:23,596] [pool-1-thread-12] Initializing /data/converted/darren/section0001_w1.tif: [testng] [2024-10-02 08:10:58,298] [pool-1-thread-12] Initializing /data/converted/converted/damian.tif: [testng] [2024-10-02 08:11:04,140] [pool-1-thread-11] Initializing /data/converted/markus/Long_TL_CElegans.tif: [testng] [2024-10-02 08:11:41,149] [pool-1-thread-12] Initializing /data/converted/rachel/40K 30s A2.tif: [testng] [2024-10-02 08:11:51,046] [pool-1-thread-4] Initializing /data/othmar/mozaic.tif: [testng] [2024-10-02 08:12:32,076] [pool-1-thread-12] Initializing /data/converted/gaetan/gml16_cenp-fitc_dapi_17.tif: [testng] [2024-10-02 08:14:06,732] [pool-1-thread-8] Initializing /data/dorai/F_ZImage10_(X10)_C.tif: [testng] [2024-10-02 08:14:43,468] [pool-1-thread-8] Initializing /data/converted/lior/live+cf5b.tif: [testng] [2024-10-02 08:15:22,808] [pool-1-thread-8] Initializing /data/converted/converted/deconvolve6_pseudo_tl000_zs000.tif: [testng] [2024-10-02 08:15:25,326] [pool-1-thread-9] Initializing /data/converted/markus/HighSpeedParas.tif: [testng] [2024-10-02 08:15:38,459] [pool-1-thread-2] Initializing /data/converted/gaetan/gml16_cenp-fitc_dapi_23.tif: [testng] [2024-10-02 08:15:45,400] [pool-1-thread-1] Initializing /data/converted/converted/2chz.tif: [testng] [2024-10-02 08:15:47,175] [pool-1-thread-8] Initializing /data/converted/markus/HeLa-Reggie-GFP_ZT_fast-DCV-CI-measured-PSF.tif: [testng] [2024-10-02 08:16:14,922] [pool-1-thread-4] Initializing /data/converted/susan/BY4741NQ2.tif: [testng] [2024-10-02 08:16:42,820] [pool-1-thread-4] Initializing /data/converted/converted/2chzt.tif: [testng] [2024-10-02 08:18:29,719] [pool-1-thread-7] Initializing /data/converted/joseph/Alike_best_example_but_WORKS_FINE_maybe_cause_shorter_expose.tif: [testng] [2024-10-02 08:18:43,893] [pool-1-thread-1] Initializing /data/converted/karsten/247096n3s3s9.tif: [testng] [2024-10-02 08:19:43,978] [pool-1-thread-3] Initializing /data/converted/markus/Mouse-newborn-panorama.tif: [testng] [2024-10-02 08:20:12,889] [pool-1-thread-10] Initializing /data/converted/nicolas/image.tif: [testng] [2024-10-02 08:20:15,820] [pool-1-thread-5] Initializing /data/converted/gaetan/gml16_cenp-fitc_dapi_22.tif: [testng] [2024-10-02 08:20:28,790] [pool-1-thread-3] Initializing /data/converted/markus/Hypocampus_Tiles_with_stiching.tif: [testng] [2024-10-02 08:20:30,586] [pool-1-thread-7] Initializing /data/converted/markus/VivaTome_sample/cell 40 w raw fast-sidebyside.tif: [testng] [2024-10-02 08:20:34,158] [pool-1-thread-10] Initializing /data/converted/joseph/BEST_EXAMPLE_LONGER_EXPOSURE.tif: [testng] [2024-10-02 08:20:48,156] [pool-1-thread-12] Initializing /data/converted/gaetan/gml16_cenp-fitc_dapi_11.tif: [testng] [2024-10-02 08:20:57,950] [pool-1-thread-1] Initializing /data/converted/markus/Branchiostoma_6x12_MosaiX_Tiles_color.tif: [testng] [2024-10-02 08:21:53,803] [pool-1-thread-10] Initializing /data/converted/markus/MosaiX_irregular_Z-stack_with_autofocus.tif: [testng] [2024-10-02 08:22:51,452] [pool-1-thread-3] Initializing /data/converted/dan/zstack_convalaria.tif: [testng] [2024-10-02 08:23:20,859] [pool-1-thread-3] Initializing /data/converted/james/Sylvain_run3_1Gy_Live7-2008-0019.tif: [testng] [2024-10-02 08:23:26,896] [pool-1-thread-2] Initializing /data/converted/dietmar/138.tif: 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$AbstractBuildExecution.run(AbstractBuild.java:526) at hudson.model.Run.execute(Run.java:1895) at hudson.model.FreeStyleBuild.run(FreeStyleBuild.java:44) at hudson.model.ResourceController.execute(ResourceController.java:101) at hudson.model.Executor.run(Executor.java:442) FATAL: Unable to delete script file /tmp/jenkins2906759299086288471.sh java.nio.channels.ClosedChannelException at org.jenkinsci.remoting.protocol.impl.ChannelApplicationLayer.onReadClosed(ChannelApplicationLayer.java:241) at org.jenkinsci.remoting.protocol.ApplicationLayer.onRecvClosed(ApplicationLayer.java:221) at org.jenkinsci.remoting.protocol.ProtocolStack$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