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Started by upstream project "BIOFORMATS-test-repo" build number 116 originally caused by: Started by upstream project "Trigger" build number 133 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/jenkins14146157673706804825.sh + '[' obf = slidebook ']' ++ date +%u + '[' 3 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_18165_merge_ci -v /uod/idr/repos/curated/obf:/data -v /uod/idr-scratch/merge-ci/curated/obf:/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] 02:39:48,158 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 02:39:48,160 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service. [testng] 02:39:48,160 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:39:48,160 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:39:48,161 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 02:39:48,161 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 02:39:48,162 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 02:39:48,162 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:39:48,162 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:39:48,162 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 02:39:48,163 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 02:39:48,163 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 02:39:48,361 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:39:48,361 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:39:48,383 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:39:48,384 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:39:48,390 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:39:48,390 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:39:48,390 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:39:48,391 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:39:48,391 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration. [testng] 02:39:48,392 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point [testng] 02:39:48,392 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 230 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-07-10 02:39:48,400] [main] java.version = 17.0.2 [testng] 02:39:48,403 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:39:48,404 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:39:48,443 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-07-10_02-39-48.log] [testng] 02:39:48,445 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration. [testng] [2024-07-10 02:39:48,447] [main] testng.directory = /data [testng] [2024-07-10 02:39:48,447] [main] testng.configDirectory = /config [testng] [2024-07-10 02:39:48,455] [main] testng.multiplier = 1.0 [testng] [2024-07-10 02:39:48,456] [main] testng.in-memory = false [testng] [2024-07-10 02:39:48,456] [main] testng.allow-missing = false [testng] [2024-07-10 02:39:48,456] [main] user.language = en [testng] [2024-07-10 02:39:48,456] [main] user.country = ${user.country} [testng] [2024-07-10 02:39:48,456] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-07-10 02:39:50,075] [main] ---------------------------------------- [testng] [2024-07-10 02:39:50,075] [main] Total files: 12 [testng] [2024-07-10 02:39:50,075] [main] Scan time: 1.618 s (134 ms/file) [testng] [2024-07-10 02:39:50,075] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 11 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-07-10 02:39:54,664] [pool-1-thread-1] Initializing /data/zoltan/3D-CONFOCAL-PSF-235nm.msr: [testng] 02:39:54,665 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:39:54,665 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:39:54,666 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-07-10_02-39-54.log] [testng] 02:39:54,666 |-INFO in ch.qos.logback.core.sift.SiftProcessor@508a0ec8 - End of configuration. [testng] [2024-07-10 02:39:54,718] [pool-1-thread-11] Initializing /data/tristan/Example_Chrimson_Beads_40nm.msr: [testng] 02:39:54,718 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:39:54,718 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:39:54,719 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-07-10_02-39-54.log] [testng] 02:39:54,720 |-INFO in ch.qos.logback.core.sift.SiftProcessor@644f2eb - End of configuration. [testng] [2024-07-10 02:39:54,769] [pool-1-thread-10] Initializing /data/qa-27923/test.obf: [testng] 02:39:54,769 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:39:54,769 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:39:54,770 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-07-10_02-39-54.log] [testng] 02:39:54,770 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6f26f7f5 - End of configuration. [testng] [2024-07-10 02:39:54,843] [pool-1-thread-9] Initializing /data/public/ngladitz/v6/test-v6.obf: [testng] 02:39:54,843 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:39:54,844 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:39:54,844 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-07-10_02-39-54.log] [testng] 02:39:54,845 |-INFO in ch.qos.logback.core.sift.SiftProcessor@265c5f0f - End of configuration. [testng] [2024-07-10 02:39:55,185] [pool-1-thread-8] Initializing /data/public/ngladitz/v6/test-v6-short-write.obf: [testng] 02:39:55,186 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:39:55,186 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:39:55,186 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-07-10_02-39-55.log] [testng] 02:39:55,187 |-INFO in ch.qos.logback.core.sift.SiftProcessor@74003700 - End of configuration. [testng] [2024-07-10 02:39:55,265] [pool-1-thread-7] Initializing /data/qa-16895/Measurement1.msr: [testng] 02:39:55,265 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:39:55,265 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:39:55,266 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-07-10_02-39-55.log] [testng] 02:39:55,266 |-INFO in ch.qos.logback.core.sift.SiftProcessor@66a1e28d - End of configuration. [testng] [2024-07-10 02:39:55,344] [pool-1-thread-6] Initializing /data/public/ngladitz/v4/test-v4.obf: [testng] 02:39:55,344 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:39:55,344 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:39:55,345 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-07-10_02-39-55.log] [testng] 02:39:55,345 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7015d5f7 - End of configuration. [testng] [2024-07-10 02:39:55,544] [pool-1-thread-5] Initializing /data/public/ngladitz/v6/test-v6-uncompressed.obf: [testng] 02:39:55,544 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:39:55,544 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:39:55,545 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-07-10_02-39-55.log] [testng] 02:39:55,545 |-INFO in ch.qos.logback.core.sift.SiftProcessor@b9b5145 - End of configuration. [testng] [2024-07-10 02:39:56,124] [pool-1-thread-4] Initializing /data/qa-17111/before 1.msr: [testng] 02:39:56,124 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:39:56,124 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:39:56,125 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-07-10_02-39-56.log] [testng] 02:39:56,126 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3a89d54 - End of configuration. [testng] [2024-07-10 02:39:57,051] [pool-1-thread-3] Initializing /data/public/ngladitz/v4/test-v4-uncompressed.obf: [testng] 02:39:57,052 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:39:57,052 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:39:57,052 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-07-10_02-39-57.log] [testng] 02:39:57,053 |-INFO in ch.qos.logback.core.sift.SiftProcessor@12202346 - End of configuration. [testng] [2024-07-10 02:39:57,273] [pool-1-thread-2] Initializing /data/bjoernthiel/20191106__zstack.msr: [testng] 02:39:57,273 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:39:57,273 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:39:57,274 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-07-10_02-39-57.log] [testng] 02:39:57,274 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6dc00e1d - End of configuration. [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 583, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 40 seconds Finished: SUCCESS