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Started by upstream project "BIOFORMATS-test-repo" build number 201 originally caused by: Started by upstream project "Trigger" build number 226 originally caused by: Started by user devspace Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@9 [BIOFORMATS-test-folder@9] $ /bin/bash -xe /tmp/jenkins15281956158639070252.sh + '[' leica-tcs = slidebook ']' ++ date +%u + '[' 4 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_31939_merge_ci -v /uod/idr/repos/curated/leica-tcs:/data -v /uod/idr-scratch/merge-ci/curated/leica-tcs:/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warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] warning: [options] source value 8 is obsolete and will be removed in a future release [javac] warning: [options] target value 8 is obsolete and will be removed in a future release [javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options.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] 15:36:04,787 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 15:36:04,788 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - No custom configurators were discovered as a service. [testng] 15:36:04,788 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 15:36:04,789 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 15:36:04,789 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 15:36:04,789 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 15:36:04,790 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 15:36:04,790 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 15:36:04,790 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 15:36:04,791 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 15:36:04,791 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 15:36:04,791 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 15:36:04,944 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 15:36:04,944 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 15:36:04,967 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 15:36:04,967 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 15:36:04,974 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 15:36:04,974 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 15:36:04,974 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 15:36:04,974 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 15:36:04,975 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@d9345cd - End of configuration. [testng] 15:36:04,975 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@48aca48b - Registering current configuration as safe fallback point [testng] 15:36:04,975 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 185 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-09-26 15:36:04,984] [main] java.version = 21 [testng] 15:36:04,987 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 15:36:04,987 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:36:05,028 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-09-26_15-36-05.log] [testng] 15:36:05,029 |-INFO in ch.qos.logback.core.sift.SiftProcessor@71687585 - End of configuration. [testng] [2024-09-26 15:36:05,031] [main] testng.directory = /data [testng] [2024-09-26 15:36:05,031] [main] testng.configDirectory = /config [testng] [2024-09-26 15:36:05,040] [main] testng.multiplier = 1.0 [testng] [2024-09-26 15:36:05,040] [main] testng.in-memory = false [testng] [2024-09-26 15:36:05,040] [main] testng.allow-missing = false [testng] [2024-09-26 15:36:05,040] [main] user.language = en [testng] [2024-09-26 15:36:05,040] [main] user.country = ${user.country} [testng] [2024-09-26 15:36:05,041] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-09-26 15:36:18,690] [main] ---------------------------------------- [testng] [2024-09-26 15:36:18,691] [main] Total files: 944 [testng] [2024-09-26 15:36:18,691] [main] Scan time: 13.649 s (14 ms/file) [testng] [2024-09-26 15:36:18,691] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 15 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-09-26 15:38:02,278] [pool-1-thread-1] Initializing /data/stjude/AntoDay4dblmy2GRP.tif: [testng] 15:38:02,278 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 15:38:02,279 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:38:02,280 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-09-26_15-38-02.log] [testng] 15:38:02,280 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3694b859 - End of configuration. [testng] [2024-09-26 15:38:04,032] [pool-1-thread-12] Initializing /data/stjude/AntoDayzerocy3GRP.tif: [testng] 15:38:04,032 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 15:38:04,032 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:38:04,033 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-09-26_15-38-04.log] [testng] 15:38:04,033 |-INFO in ch.qos.logback.core.sift.SiftProcessor@722c41b5 - End of configuration. [testng] [2024-09-26 15:38:05,792] [pool-1-thread-11] Initializing /data/stjude/AntoDay4dblmyGRP.tif: [testng] 15:38:05,793 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 15:38:05,793 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:38:05,794 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-09-26_15-38-05.log] [testng] 15:38:05,794 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3c939155 - End of configuration. [testng] [2024-09-26 15:38:07,287] [pool-1-thread-10] Initializing /data/stjude/AntoDay1dblGRP.tif: [testng] 15:38:07,288 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 15:38:07,288 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:38:07,289 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-09-26_15-38-07.log] [testng] 15:38:07,290 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7c606689 - End of configuration. [testng] [2024-09-26 15:38:08,850] [pool-1-thread-9] Initializing /data/stjude/Antoday1dblcatsglGRP.tif: [testng] 15:38:08,850 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 15:38:08,850 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:38:08,851 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-09-26_15-38-08.log] [testng] 15:38:08,851 |-INFO in ch.qos.logback.core.sift.SiftProcessor@47afd8c1 - End of configuration. [testng] [2024-09-26 15:38:10,265] [pool-1-thread-8] Initializing /data/stjude/Antoday1dblcat2dataGRP.tif: [testng] 15:38:10,265 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 15:38:10,265 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:38:10,266 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-09-26_15-38-10.log] [testng] 15:38:10,266 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2a672113 - End of configuration. [testng] [2024-09-26 15:38:11,686] [pool-1-thread-7] Initializing /data/stjude/AntoDay4dblcatdataGRP.tif: [testng] 15:38:11,686 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 15:38:11,686 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:38:11,687 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-09-26_15-38-11.log] [testng] 15:38:11,687 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4e6f0245 - End of configuration. [testng] [2024-09-26 15:38:13,331] [pool-1-thread-6] Initializing /data/brian/Series002_z00_ch00.tif: [testng] 15:38:13,332 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 15:38:13,332 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:38:13,332 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-09-26_15-38-13.log] [testng] 15:38:13,333 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7ba2cebc - End of configuration. [testng] [2024-09-26 15:38:14,789] [pool-1-thread-5] Initializing /data/brian/Series002_z01.tif: [testng] 15:38:14,789 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 15:38:14,789 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:38:14,789 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-09-26_15-38-14.log] [testng] 15:38:14,790 |-INFO in ch.qos.logback.core.sift.SiftProcessor@74b1f578 - End of configuration. [testng] [2024-09-26 15:38:17,157] [pool-1-thread-4] Initializing /data/stjude/AntoDayzerocy3OVP.tif: [testng] 15:38:17,157 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 15:38:17,157 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:38:17,157 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-09-26_15-38-17.log] [testng] 15:38:17,158 |-INFO in ch.qos.logback.core.sift.SiftProcessor@15647d95 - End of configuration. [testng] [2024-09-26 15:38:19,024] [pool-1-thread-3] Initializing /data/dave/series 35/042911_Series035_t00_z000_ch00.tif: [testng] 15:38:19,024 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 15:38:19,024 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:38:19,025 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-09-26_15-38-19.log] [testng] 15:38:19,025 |-INFO in ch.qos.logback.core.sift.SiftProcessor@a927300 - End of configuration. [testng] [2024-09-26 15:39:36,582] [pool-1-thread-2] Initializing /data/martin/Series028_z00_ch00.tif: [testng] 15:39:36,582 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 15:39:36,582 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:39:36,583 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-09-26_15-39-36.log] [testng] 15:39:36,596 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3cfc718b - End of configuration. [testng] [2024-09-26 15:39:55,599] [pool-1-thread-5] Initializing /data/stjude/Antoday1dblmysglGRP.tif: [testng] [2024-09-26 15:39:58,073] [pool-1-thread-9] Initializing /data/primate/Leica_Image.tif: [testng] [2024-09-26 15:39:59,848] [pool-1-thread-6] Initializing /data/stjude/AntoDay1cy3/c01f0001.TIF: [testng] 16:42:12,157 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 16:42:12,157 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:42:12,159 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-09-26_16-42-12.log] [testng] 16:42:12,159 |-INFO in ch.qos.logback.core.sift.SiftProcessor@27df95e - End of configuration. [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 795, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 66 minutes 12 seconds Finished: SUCCESS