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Started by upstream project "BIOFORMATS-test-repo" build number 109 originally caused by: Started by upstream project "Trigger" build number 122 originally caused by: Started by user devspace Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@6 [BIOFORMATS-test-folder@6] $ /bin/bash -xe /tmp/jenkins18132069527378646290.sh + '[' imagepro = slidebook ']' ++ date +%u + '[' 2 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_17023_merge_ci -v /uod/idr/repos/curated/imagepro:/data -v /uod/idr-scratch/merge-ci/curated/imagepro:/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] 13:27:49,672 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 13:27:49,674 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - No custom configurators were discovered as a service. [testng] 13:27:49,674 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 13:27:49,675 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 13:27:49,676 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 13:27:49,676 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 13:27:49,677 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 2 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 13:27:49,677 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 13:27:49,677 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 13:27:49,678 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 13:27:49,679 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 13:27:49,679 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 13:27:49,955 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 13:27:49,955 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 13:27:49,983 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 13:27:49,984 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 13:27:49,991 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 13:27:49,991 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 13:27:49,991 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 13:27:49,992 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 13:27:49,992 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2794eab6 - End of configuration. [testng] 13:27:49,993 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6c1a5b54 - Registering current configuration as safe fallback point [testng] 13:27:49,993 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 316 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-07-02 13:27:50,004] [main] java.version = 11.0.16 [testng] 13:27:50,008 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 13:27:50,009 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:27:50,065 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-07-02_13-27-50.log] [testng] 13:27:50,067 |-INFO in ch.qos.logback.core.sift.SiftProcessor@642a7222 - End of configuration. [testng] [2024-07-02 13:27:50,070] [main] testng.directory = /data [testng] [2024-07-02 13:27:50,070] [main] testng.configDirectory = /config [testng] [2024-07-02 13:27:50,082] [main] testng.multiplier = 1.0 [testng] [2024-07-02 13:27:50,084] [main] testng.in-memory = false [testng] [2024-07-02 13:27:50,084] [main] testng.allow-missing = false [testng] [2024-07-02 13:27:50,084] [main] user.language = en [testng] [2024-07-02 13:27:50,084] [main] user.country = ${user.country} [testng] [2024-07-02 13:27:50,085] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-07-02 13:27:51,242] [main] ---------------------------------------- [testng] [2024-07-02 13:27:51,242] [main] Total files: 22 [testng] [2024-07-02 13:27:51,242] [main] Scan time: 1.157 s (52 ms/file) [testng] [2024-07-02 13:27:51,242] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 21 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-07-02 13:27:57,874] [pool-1-thread-1] Initializing /data/xiuwen/head2.seq: [testng] 13:27:57,875 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 13:27:57,875 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:27:57,877 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-07-02_13-27-57.log] [testng] 13:27:57,877 |-INFO in ch.qos.logback.core.sift.SiftProcessor@344720c5 - End of configuration. [testng] [2024-07-02 13:27:58,001] [pool-1-thread-12] Initializing /data/converted/dub01.pic: [testng] 13:27:58,001 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 13:27:58,001 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:27:58,010 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-07-02_13-27-58.log] [testng] 13:27:58,011 |-INFO in ch.qos.logback.core.sift.SiftProcessor@30a7fb80 - End of configuration. [testng] [2024-07-02 13:27:58,074] [pool-1-thread-11] Initializing /data/converted/clown.tif: [testng] 13:27:58,074 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 13:27:58,074 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:27:58,075 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-07-02_13-27-58.log] [testng] 13:27:58,076 |-INFO in ch.qos.logback.core.sift.SiftProcessor@35e646e1 - End of configuration. [testng] [2024-07-02 13:27:58,105] [pool-1-thread-10] Initializing /data/samples/PROBE.TIF: [testng] 13:27:58,106 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 13:27:58,106 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:27:58,106 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-07-02_13-27-58.log] [testng] 13:27:58,107 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2c794cae - End of configuration. [testng] [2024-07-02 13:27:58,171] [pool-1-thread-9] Initializing /data/converted/mitosis-test.ipw: [testng] 13:27:58,172 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 13:27:58,172 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:27:58,172 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-07-02_13-27-58.log] [testng] 13:27:58,173 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6ca8884a - End of configuration. [testng] [2024-07-02 13:27:58,228] [pool-1-thread-8] Initializing /data/converted/clown8c.tif: [testng] 13:27:58,228 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 13:27:58,228 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:27:58,229 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-07-02_13-27-58.log] [testng] 13:27:58,230 |-INFO in ch.qos.logback.core.sift.SiftProcessor@59e87e0e - End of configuration. [testng] [2024-07-02 13:27:58,293] [pool-1-thread-7] Initializing /data/converted/mitosis-test.tif: [testng] 13:27:58,293 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 13:27:58,293 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:27:58,294 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-07-02_13-27-58.log] [testng] 13:27:58,294 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4894a29a - End of configuration. [testng] [2024-07-02 13:27:58,480] [pool-1-thread-6] Initializing /data/alex/AFAset0003.ips: [testng] 13:27:58,480 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 13:27:58,480 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:27:58,481 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-07-02_13-27-58.log] [testng] 13:27:58,481 |-INFO in ch.qos.logback.core.sift.SiftProcessor@49bc5ebc - End of configuration. [testng] [2024-07-02 13:27:58,493] [pool-1-thread-5] Initializing /data/converted/dub01.ipw: [testng] 13:27:58,493 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 13:27:58,494 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:27:58,494 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-07-02_13-27-58.log] [testng] 13:27:58,495 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36c6b355 - End of configuration. [testng] [2024-07-02 13:27:58,538] [pool-1-thread-4] Initializing /data/converted/clown.seq: [testng] 13:27:58,538 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 13:27:58,538 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:27:58,539 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-07-02_13-27-58.log] [testng] 13:27:58,539 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2b33f7f4 - End of configuration. [testng] [2024-07-02 13:27:58,558] [pool-1-thread-3] Initializing /data/converted/NESb_C2_TP7.ipw: [testng] 13:27:58,558 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 13:27:58,558 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:27:58,559 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-07-02_13-27-58.log] [testng] 13:27:58,559 |-INFO in ch.qos.logback.core.sift.SiftProcessor@72ab1e71 - End of configuration. [testng] [2024-07-02 13:27:58,598] [pool-1-thread-2] Initializing /data/converted/clown.ipw: [testng] 13:27:58,598 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 13:27:58,598 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:27:58,599 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-07-02_13-27-58.log] [testng] 13:27:58,599 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6a30a3b6 - End of configuration. [testng] [2024-07-02 13:28:01,050] [pool-1-thread-8] Initializing /data/converted/mitosis-test.seq: [testng] [2024-07-02 13:28:01,081] [pool-1-thread-10] Initializing /data/samples/FLDUAL.TIF: [testng] [2024-07-02 13:28:01,130] [pool-1-thread-3] Initializing /data/converted/NESb_C2_TP7.tiff: [testng] [2024-07-02 13:28:01,188] [pool-1-thread-12] Initializing /data/samples/HEART.SEQ: [testng] [2024-07-02 13:28:01,209] [pool-1-thread-2] Initializing /data/converted/clown8c.seq: [testng] [2024-07-02 13:28:01,229] [pool-1-thread-11] Initializing /data/converted/dub01.seq: [testng] [2024-07-02 13:28:01,255] [pool-1-thread-9] Initializing /data/converted/clown8c.ipw: [testng] [2024-07-02 13:28:01,267] [pool-1-thread-4] Initializing /data/samples/TISSUE.TIF: [testng] [2024-07-02 13:28:01,293] [pool-1-thread-7] Initializing /data/converted/NESb_C2_TP7.seq: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1113, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 26 seconds Finished: SUCCESS