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Started by upstream project "BIOFORMATS-test-repo" build number 240 originally caused by: Started by upstream project "Trigger" build number 265 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/jenkins2299995006657761818.sh + '[' imaris = slidebook ']' ++ date +%u + '[' 4 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_37793_merge_ci -v /uod/idr/repos/curated/imaris:/data -v /uod/idr-scratch/merge-ci/curated/imaris:/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warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] warning: [options] source value 8 is obsolete and will be removed in a future release [javac] warning: [options] target value 8 is obsolete and will be removed in a future release [javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options.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] 02:34:13,998 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 02:34:13,999 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - No custom configurators were discovered as a service. [testng] 02:34:13,999 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:34:14,000 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:34:14,001 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 02:34:14,001 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 02:34:14,001 |-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] 02:34:14,001 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:34:14,002 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:34:14,002 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 02:34:14,003 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 02:34:14,003 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 02:34:14,157 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:34:14,157 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:34:14,182 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:34:14,182 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:34:14,188 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:34:14,188 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:34:14,189 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:34:14,189 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:34:14,189 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@29215f06 - End of configuration. [testng] 02:34:14,190 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@b9b00e0 - Registering current configuration as safe fallback point [testng] 02:34:14,190 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 188 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-10-31 02:34:14,199] [main] java.version = 21 [testng] 02:34:14,202 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:34:14,202 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:34:14,242 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-31_02-34-14.log] [testng] 02:34:14,243 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1b919693 - End of configuration. [testng] [2024-10-31 02:34:14,245] [main] testng.directory = /data [testng] [2024-10-31 02:34:14,245] [main] testng.configDirectory = /config [testng] [2024-10-31 02:34:14,253] [main] testng.multiplier = 1.0 [testng] [2024-10-31 02:34:14,254] [main] testng.in-memory = false [testng] [2024-10-31 02:34:14,254] [main] testng.allow-missing = false [testng] [2024-10-31 02:34:14,254] [main] user.language = en [testng] [2024-10-31 02:34:14,254] [main] user.country = ${user.country} [testng] [2024-10-31 02:34:14,254] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-10-31 02:34:38,749] [main] ---------------------------------------- [testng] [2024-10-31 02:34:38,750] [main] Total files: 68 [testng] [2024-10-31 02:34:38,750] [main] Scan time: 24.495 s (360 ms/file) [testng] [2024-10-31 02:34:38,750] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 60 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-10-31 02:35:12,395] [pool-1-thread-1] Initializing /data/generated/10-31_E_t0005.ims: [testng] 02:35:12,395 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:35:12,395 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:35:12,396 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-31_02-35-12.log] [testng] 02:35:12,397 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6a7828d5 - End of configuration. [testng] [2024-10-31 02:35:12,515] [pool-1-thread-12] Initializing /data/public/eliana/retina_large.ims: [testng] 02:35:12,515 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:35:12,515 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:35:12,516 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-10-31_02-35-12.log] [testng] 02:35:12,516 |-INFO in ch.qos.logback.core.sift.SiftProcessor@60380cb1 - End of configuration. [testng] [2024-10-31 02:35:12,828] [pool-1-thread-11] Initializing /data/public/davemason/Convallaria_3C_3T_35Z_confocal_deconvolved_IMS3.ims: [testng] 02:35:12,828 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:35:12,828 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:35:12,829 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-10-31_02-35-12.log] [testng] 02:35:12,829 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2e597bed - End of configuration. [testng] [2024-10-31 02:35:13,174] [pool-1-thread-10] Initializing /data/public/davemason/Convallaria_3C_3T_35Z_confocal_IMS3.ims: [testng] 02:35:13,174 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:35:13,174 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:35:13,175 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-31_02-35-13.log] [testng] 02:35:13,176 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5be5b327 - End of configuration. [testng] [2024-10-31 02:35:13,502] [pool-1-thread-9] Initializing /data/jason/imaris_5_5_demoimages/R18Demo.ims: [testng] 02:35:13,502 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:35:13,502 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:35:13,503 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-31_02-35-13.log] [testng] 02:35:13,503 |-INFO in ch.qos.logback.core.sift.SiftProcessor@370c29f4 - End of configuration. [testng] [2024-10-31 02:35:13,794] [pool-1-thread-8] Initializing /data/generated/10-31_E_t0009.ims: [testng] 02:35:13,794 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:35:13,794 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:35:13,795 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-31_02-35-13.log] [testng] 02:35:13,795 |-INFO in ch.qos.logback.core.sift.SiftProcessor@c3a120e - End of configuration. [testng] [2024-10-31 02:35:13,909] [pool-1-thread-7] Initializing /data/public/davemason/Convallaria_3C_1T_confocal_IMS3.ims: [testng] 02:35:13,909 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:35:13,909 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:35:13,910 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-31_02-35-13.log] [testng] 02:35:13,910 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6612fd18 - End of configuration. [testng] [2024-10-31 02:35:14,188] [pool-1-thread-6] Initializing /data/jason/imaris_5_5_demoimages/PlantCell.ims: [testng] 02:35:14,188 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:35:14,188 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:35:14,189 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-31_02-35-14.log] [testng] 02:35:14,189 |-INFO in ch.qos.logback.core.sift.SiftProcessor@58fd5405 - End of configuration. [testng] [2024-10-31 02:35:14,452] [pool-1-thread-5] Initializing /data/public/davemason/TransFactors_2C_34Z_SRRF_IMS3.ims: [testng] 02:35:14,452 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:35:14,452 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:35:14,452 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-31_02-35-14.log] [testng] 02:35:14,453 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2749d8f - End of configuration. [testng] [2024-10-31 02:35:14,793] [pool-1-thread-4] Initializing /data/public/davemason/Convallaria_3C_10T_confocal_IMS3.ims: [testng] 02:35:14,793 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:35:14,793 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:35:14,794 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-31_02-35-14.log] [testng] 02:35:14,794 |-INFO in ch.qos.logback.core.sift.SiftProcessor@22b7427d - End of configuration. [testng] [2024-10-31 02:35:15,179] [pool-1-thread-3] Initializing /data/qa-17515/Organoid=1.ims: [testng] 02:35:15,179 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:35:15,179 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:35:15,180 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-31_02-35-15.log] [testng] 02:35:15,180 |-INFO in ch.qos.logback.core.sift.SiftProcessor@d5d3ef0 - End of configuration. [testng] [2024-10-31 02:35:15,487] [pool-1-thread-2] Initializing /data/oliver/Stack2_float32Bit.ims: [testng] 02:35:15,488 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:35:15,488 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:35:15,488 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-31_02-35-15.log] [testng] 02:35:15,489 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2895e1b0 - End of configuration. [testng] [2024-10-31 02:35:17,970] [pool-1-thread-1] Initializing /data/generated/10-31_E_t0000.ims: [testng] [2024-10-31 02:35:18,060] [pool-1-thread-8] Initializing /data/generated/MF-2CH-Z-T.ims: [testng] [2024-10-31 02:35:18,157] [pool-1-thread-9] Initializing /data/generated/10-31_E_t0002.ims: [testng] [2024-10-31 02:35:18,681] [pool-1-thread-6] Initializing /data/public/eliana/2016-07-26_17.11.03_Sample Prefix_5P298C2_Protocol.ims: BUILD SUCCESSFUL Total time: 3 minutes 6 seconds Finished: SUCCESS