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Started by upstream project "BIOFORMATS-test-repo" build number 301 originally caused by: Started by upstream project "Trigger" build number 323 originally caused by: Started by timer 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/jenkins8052445976047469049.sh + '[' leica-scn = slidebook ']' ++ date +%u + '[' 6 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_47688_merge_ci -v /uod/idr/repos/curated/leica-scn:/data -v /uod/idr-scratch/merge-ci/curated/leica-scn:/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] WARNING: An illegal reflective access operation has occurred [testng] WARNING: Illegal reflective access by org.kohsuke.file_leak_detector.Listener (file:/home/build/.m2/repository/org/kohsuke/file-leak-detector/1.18/file-leak-detector-1.18-jar-with-dependencies.jar) to field java.net.SocketImpl.socket [testng] WARNING: Please consider reporting this to the maintainers of org.kohsuke.file_leak_detector.Listener [testng] WARNING: Use --illegal-access=warn to enable warnings of further illegal reflective access operations [testng] WARNING: All illegal access operations will be denied in a future release [testng] File leak detector installed [testng] 06:32:39,705 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 06:32:39,706 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - No custom configurators were discovered as a service. [testng] 06:32:39,706 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 06:32:39,707 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 06:32:39,708 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 06:32:39,708 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 06:32:39,708 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 06:32:39,708 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 06:32:39,709 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 06:32:39,709 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 06:32:39,710 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 06:32:39,710 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 06:32:39,865 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 06:32:39,865 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 06:32:39,886 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 06:32:39,886 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 06:32:39,891 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 06:32:39,891 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 06:32:39,891 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 06:32:39,891 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 06:32:39,891 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@45099dd3 - End of configuration. [testng] 06:32:39,892 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@60099951 - Registering current configuration as safe fallback point [testng] 06:32:39,892 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 183 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-12-28 06:32:39,900] [main] java.version = 11.0.16 [testng] 06:32:39,903 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 06:32:39,903 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:32:39,942 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-28_06-32-39.log] [testng] 06:32:39,944 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21be3395 - End of configuration. [testng] [2024-12-28 06:32:39,946] [main] testng.directory = /data [testng] [2024-12-28 06:32:39,946] [main] testng.configDirectory = /config [testng] [2024-12-28 06:32:39,955] [main] testng.multiplier = 1.0 [testng] [2024-12-28 06:32:39,956] [main] testng.in-memory = false [testng] [2024-12-28 06:32:39,956] [main] testng.allow-missing = false [testng] [2024-12-28 06:32:39,956] [main] user.language = en [testng] [2024-12-28 06:32:39,956] [main] user.country = ${user.country} [testng] [2024-12-28 06:32:39,956] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-12-28 06:33:00,721] [main] ---------------------------------------- [testng] [2024-12-28 06:33:00,721] [main] Total files: 12 [testng] [2024-12-28 06:33:00,721] [main] Scan time: 20.765 s (1730 ms/file) [testng] [2024-12-28 06:33:00,721] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 12 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-12-28 06:33:14,539] [pool-1-thread-1] Initializing /data/michael/collection_0000008286_2012-05-23 17_20_46.scn: [testng] 06:33:14,540 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 06:33:14,540 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:33:14,541 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-28_06-33-14.log] [testng] 06:33:14,542 |-INFO in ch.qos.logback.core.sift.SiftProcessor@24ee8202 - End of configuration. [testng] [2024-12-28 06:33:15,774] [pool-1-thread-12] Initializing /data/michael/collection_0000008286_2012-05-23 17_20_46 fullresolution.jpg: [testng] 06:33:15,774 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 06:33:15,774 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:33:15,775 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-28_06-33-15.log] [testng] 06:33:15,776 |-INFO in ch.qos.logback.core.sift.SiftProcessor@8059152 - End of configuration. [testng] [2024-12-28 06:33:15,912] [pool-1-thread-11] Initializing /data/qa-17671/132223-12_022a1963-b32e-467f-8242-b51a5295951f.SCN: [testng] 06:33:15,912 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 06:33:15,912 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:33:15,913 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-28_06-33-15.log] [testng] 06:33:15,913 |-INFO in ch.qos.logback.core.sift.SiftProcessor@30624b25 - End of configuration. [testng] [2024-12-28 06:33:16,970] [pool-1-thread-10] Initializing /data/public/openslide/Leica-3/Leica-3.scn: [testng] 06:33:16,970 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 06:33:16,970 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:33:16,971 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-28_06-33-16.log] [testng] 06:33:16,971 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5cae9448 - End of configuration. [testng] [2024-12-28 06:33:18,083] [pool-1-thread-9] Initializing /data/qa-10469/Slide_907790L_DAPI_Ki67.scn: [testng] 06:33:18,084 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 06:33:18,084 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:33:18,084 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-28_06-33-18.log] [testng] 06:33:18,085 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7b67832d - End of configuration. [testng] [2024-12-28 06:33:19,122] [pool-1-thread-8] Initializing /data/michael/collection_0000008286_2012-05-23 17_20_46 opened usig LOCI.tif: [testng] 06:33:19,123 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 06:33:19,123 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:33:19,123 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-28_06-33-19.log] [testng] 06:33:19,124 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7648c1a7 - End of configuration. [testng] [2024-12-28 06:33:20,084] [pool-1-thread-7] Initializing /data/scott/ImageCollection_0000000418_2010-10-27 13_31_31Z.scn: [testng] 06:33:20,084 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 06:33:20,084 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:33:20,085 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-28_06-33-20.log] [testng] 06:33:20,085 |-INFO in ch.qos.logback.core.sift.SiftProcessor@ce62f48 - End of configuration. [testng] [2024-12-28 06:33:21,298] [pool-1-thread-6] Initializing /data/scott/Oral_Biology_13 (1).scn: [testng] 06:33:21,299 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 06:33:21,299 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:33:21,299 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-28_06-33-21.log] [testng] 06:33:21,300 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2abdbb38 - End of configuration. [testng] [2024-12-28 06:33:22,525] [pool-1-thread-5] Initializing /data/qa-11049/HP15.4994_2015-04-28.scn: [testng] 06:33:22,525 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 06:33:22,525 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:33:22,525 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-28_06-33-22.log] [testng] 06:33:22,526 |-INFO in ch.qos.logback.core.sift.SiftProcessor@69adbe65 - End of configuration. [testng] [2024-12-28 06:33:23,517] [pool-1-thread-4] Initializing /data/public/openslide/Leica-2/Leica-2.scn: [testng] 06:33:23,518 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 06:33:23,518 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:33:23,518 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-28_06-33-23.log] [testng] 06:33:23,519 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6fc9963f - End of configuration. [testng] [2024-12-28 06:33:24,444] [pool-1-thread-3] Initializing /data/public/openslide/Leica-1/Leica-1.scn: [testng] 06:33:24,444 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 06:33:24,444 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:33:24,444 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-28_06-33-24.log] [testng] 06:33:24,445 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1acfbdcc - End of configuration. [testng] [2024-12-28 06:33:25,485] [pool-1-thread-2] Initializing /data/mihaela/UCLAD_0000000280_2011-02-10 13_32_55Z.scn: [testng] 06:33:25,485 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 06:33:25,485 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:33:25,486 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-28_06-33-25.log] [testng] 06:33:25,486 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4c178879 - End of configuration. [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 636, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 2 minutes 15 seconds Finished: SUCCESS