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Started by upstream project "BIOFORMATS-test-repo" build number 262 originally caused by: Started by upstream project "Trigger" build number 286 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/jenkins16606700259468153067.sh + '[' imaris = slidebook ']' ++ date +%u + '[' 4 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_41401_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warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] warning: [options] source value 8 is obsolete and will be removed in a future release [javac] warning: [options] target value 8 is obsolete and will be removed in a future release [javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options.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] 03:50:56,121 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 03:50:56,122 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - No custom configurators were discovered as a service. [testng] 03:50:56,122 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 03:50:56,123 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 03:50:56,123 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 03:50:56,123 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 03:50:56,124 |-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] 03:50:56,124 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 03:50:56,124 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 03:50:56,125 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 03:50:56,125 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 03:50:56,126 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 03:50:56,281 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 03:50:56,281 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 03:50:56,311 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 03:50:56,311 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 03:50:56,319 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 03:50:56,319 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 03:50:56,319 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 03:50:56,320 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 03:50:56,320 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@29215f06 - End of configuration. [testng] 03:50:56,321 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@b9b00e0 - Registering current configuration as safe fallback point [testng] 03:50:56,321 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 197 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-11-21 03:50:56,332] [main] java.version = 21 [testng] 03:50:56,335 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 03:50:56,335 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:50:56,382 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-21_03-50-56.log] [testng] 03:50:56,384 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1b919693 - End of configuration. [testng] [2024-11-21 03:50:56,385] [main] testng.directory = /data [testng] [2024-11-21 03:50:56,385] [main] testng.configDirectory = /config [testng] [2024-11-21 03:50:56,394] [main] testng.multiplier = 1.0 [testng] [2024-11-21 03:50:56,394] [main] testng.in-memory = false [testng] [2024-11-21 03:50:56,394] [main] testng.allow-missing = false [testng] [2024-11-21 03:50:56,394] [main] user.language = en [testng] [2024-11-21 03:50:56,394] [main] user.country = ${user.country} [testng] [2024-11-21 03:50:56,394] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-11-21 03:51:34,665] [main] ---------------------------------------- [testng] [2024-11-21 03:51:34,665] [main] Total files: 68 [testng] [2024-11-21 03:51:34,665] [main] Scan time: 38.27 s (562 ms/file) [testng] [2024-11-21 03:51:34,666] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 60 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-11-21 03:52:23,294] [pool-1-thread-1] Initializing /data/generated/10-31_E_t0005.ims: [testng] 03:52:23,295 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 03:52:23,295 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:52:23,296 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-11-21_03-52-23.log] [testng] 03:52:23,296 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2d2e2cd3 - End of configuration. [testng] [2024-11-21 03:52:23,509] [pool-1-thread-12] Initializing /data/public/eliana/retina_large.ims: [testng] 03:52:23,509 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 03:52:23,509 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:52:23,510 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-11-21_03-52-23.log] [testng] 03:52:23,510 |-INFO in ch.qos.logback.core.sift.SiftProcessor@47420459 - End of configuration. [testng] [2024-11-21 03:52:24,011] [pool-1-thread-11] Initializing /data/public/davemason/Convallaria_3C_3T_35Z_confocal_deconvolved_IMS3.ims: [testng] 03:52:24,011 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 03:52:24,011 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:52:24,012 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-11-21_03-52-24.log] [testng] 03:52:24,012 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6ffe8ee5 - End of configuration. [testng] [2024-11-21 03:52:24,556] [pool-1-thread-10] Initializing /data/public/davemason/Convallaria_3C_3T_35Z_confocal_IMS3.ims: [testng] 03:52:24,557 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 03:52:24,557 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:52:24,557 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-11-21_03-52-24.log] [testng] 03:52:24,558 |-INFO in ch.qos.logback.core.sift.SiftProcessor@12a7bbd5 - End of configuration. [testng] [2024-11-21 03:52:25,084] [pool-1-thread-9] Initializing /data/jason/imaris_5_5_demoimages/R18Demo.ims: [testng] 03:52:25,084 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 03:52:25,084 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:52:25,085 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-11-21_03-52-25.log] [testng] 03:52:25,085 |-INFO in ch.qos.logback.core.sift.SiftProcessor@51598d63 - End of configuration. [testng] [2024-11-21 03:52:25,576] [pool-1-thread-8] Initializing /data/generated/10-31_E_t0009.ims: [testng] 03:52:25,576 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 03:52:25,576 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:52:25,577 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-11-21_03-52-25.log] [testng] 03:52:25,577 |-INFO in ch.qos.logback.core.sift.SiftProcessor@57806bdf - End of configuration. [testng] [2024-11-21 03:52:25,779] [pool-1-thread-7] Initializing /data/public/davemason/Convallaria_3C_1T_confocal_IMS3.ims: [testng] 03:52:25,779 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 03:52:25,779 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:52:25,780 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-11-21_03-52-25.log] [testng] 03:52:25,780 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1d190e1f - End of configuration. [testng] [2024-11-21 03:52:26,290] [pool-1-thread-6] Initializing /data/jason/imaris_5_5_demoimages/PlantCell.ims: [testng] 03:52:26,291 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 03:52:26,291 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:52:26,291 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-11-21_03-52-26.log] [testng] 03:52:26,292 |-INFO in ch.qos.logback.core.sift.SiftProcessor@48a696d1 - End of configuration. [testng] [2024-11-21 03:52:26,758] [pool-1-thread-5] Initializing /data/public/davemason/TransFactors_2C_34Z_SRRF_IMS3.ims: [testng] 03:52:26,758 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 03:52:26,758 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:52:26,759 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-11-21_03-52-26.log] [testng] 03:52:26,759 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3a446ea - End of configuration. [testng] [2024-11-21 03:52:27,258] [pool-1-thread-4] Initializing /data/public/davemason/Convallaria_3C_10T_confocal_IMS3.ims: [testng] 03:52:27,258 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 03:52:27,258 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:52:27,259 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-11-21_03-52-27.log] [testng] 03:52:27,259 |-INFO in ch.qos.logback.core.sift.SiftProcessor@142a65d3 - End of configuration. [testng] [2024-11-21 03:52:27,859] [pool-1-thread-3] Initializing /data/qa-17515/Organoid=1.ims: [testng] 03:52:27,860 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 03:52:27,860 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:52:27,860 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-11-21_03-52-27.log] [testng] 03:52:27,861 |-INFO in ch.qos.logback.core.sift.SiftProcessor@657fafec - End of configuration. [testng] [2024-11-21 03:52:28,384] [pool-1-thread-2] Initializing /data/oliver/Stack2_float32Bit.ims: [testng] 03:52:28,384 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 03:52:28,384 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:52:28,392 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-11-21_03-52-28.log] [testng] 03:52:28,393 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1ea81d9d - End of configuration. BUILD SUCCESSFUL Total time: 3 minutes 43 seconds Finished: SUCCESS