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Started by upstream project "BIOFORMATS-test-repo" build number 17 originally caused by: Started by upstream project "Trigger" build number 20 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@4 [BIOFORMATS-test-folder@4] $ /bin/bash -xe /tmp/jenkins347045481772383434.sh + '[' bmp = slidebook ']' ++ date +%u + '[' 6 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_1965_merge_ci -v /uod/idr/repos/curated/bmp:/data -v /uod/idr-scratch/merge-ci/curated/bmp:/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] 00:19:50,391 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 00:19:50,394 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - No custom configurators were discovered as a service. [testng] 00:19:50,394 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:19:50,395 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:19:50,396 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 00:19:50,397 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 00:19:50,397 |-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] 00:19:50,397 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:19:50,398 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:19:50,399 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 00:19:50,400 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 00:19:50,400 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 00:19:50,621 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 00:19:50,622 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 00:19:50,650 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 00:19:50,650 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 00:19:50,660 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 00:19:50,660 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 00:19:50,660 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 00:19:50,661 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 00:19:50,661 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2794eab6 - End of configuration. [testng] 00:19:50,663 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6c1a5b54 - Registering current configuration as safe fallback point [testng] 00:19:50,663 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 265 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-03-30 00:19:50,680] [main] java.version = 11.0.16 [testng] 00:19:50,685 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 00:19:50,685 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:19:50,749 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-03-30_00-19-50.log] [testng] 00:19:50,751 |-INFO in ch.qos.logback.core.sift.SiftProcessor@642a7222 - End of configuration. [testng] [2024-03-30 00:19:50,754] [main] testng.directory = /data [testng] [2024-03-30 00:19:50,754] [main] testng.configDirectory = /config [testng] [2024-03-30 00:19:50,765] [main] testng.multiplier = 1.0 [testng] [2024-03-30 00:19:50,767] [main] testng.in-memory = false [testng] [2024-03-30 00:19:50,767] [main] testng.allow-missing = false [testng] [2024-03-30 00:19:50,767] [main] user.language = en [testng] [2024-03-30 00:19:50,767] [main] user.country = ${user.country} [testng] [2024-03-30 00:19:50,767] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-03-30 00:19:51,296] [main] ---------------------------------------- [testng] [2024-03-30 00:19:51,296] [main] Total files: 31 [testng] [2024-03-30 00:19:51,296] [main] Scan time: 0.529 s (17 ms/file) [testng] [2024-03-30 00:19:51,296] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 31 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-03-30 00:19:52,938] [pool-1-thread-1] Initializing /data/curtis/image2.bmp: [testng] 00:19:52,939 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 00:19:52,939 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:19:52,941 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-03-30_00-19-52.log] [testng] 00:19:52,941 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7fb21053 - End of configuration. [testng] [2024-03-30 00:19:52,958] [pool-1-thread-12] Initializing /data/brian/images/DMSOHigh_001.bmp: [testng] 00:19:52,958 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 00:19:52,959 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:19:52,960 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-03-30_00-19-52.log] [testng] 00:19:52,960 |-INFO in ch.qos.logback.core.sift.SiftProcessor@20f28c81 - End of configuration. [testng] [2024-03-30 00:19:52,972] [pool-1-thread-11] Initializing /data/bk/ch_00.bmp: [testng] 00:19:52,972 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 00:19:52,972 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:19:52,973 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-03-30_00-19-52.log] [testng] 00:19:52,973 |-INFO in ch.qos.logback.core.sift.SiftProcessor@45c86090 - End of configuration. [testng] [2024-03-30 00:19:52,984] [pool-1-thread-10] Initializing /data/ticket-12971/foo.bmp: [testng] 00:19:52,985 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 00:19:52,985 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:19:52,986 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-03-30_00-19-52.log] [testng] 00:19:52,986 |-INFO in ch.qos.logback.core.sift.SiftProcessor@d6daf61 - End of configuration. [testng] [2024-03-30 00:19:52,992] [pool-1-thread-9] Initializing /data/dennis/kidney_TFl_Three.bmp: [testng] 00:19:52,993 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 00:19:52,993 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:19:52,994 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-03-30_00-19-52.log] [testng] 00:19:52,994 |-INFO in ch.qos.logback.core.sift.SiftProcessor@39ccd99b - End of configuration. [testng] [2024-03-30 00:19:53,001] [pool-1-thread-8] Initializing /data/big-images/6kx6k.bmp: [testng] 00:19:53,002 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 00:19:53,002 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:19:53,002 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-03-30_00-19-53.log] [testng] 00:19:53,003 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4fc097c7 - End of configuration. [testng] [2024-03-30 00:19:53,014] [pool-1-thread-7] Initializing /data/curtis/image1.bmp: [testng] 00:19:53,015 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 00:19:53,015 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:19:53,015 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-03-30_00-19-53.log] [testng] 00:19:53,016 |-INFO in ch.qos.logback.core.sift.SiftProcessor@382d34b5 - End of configuration. [testng] [2024-03-30 00:19:53,039] [pool-1-thread-6] Initializing /data/brian/images/kidney_TFl_1.bmp: [testng] 00:19:53,039 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 00:19:53,040 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:19:53,040 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-03-30_00-19-53.log] [testng] 00:19:53,041 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4ff9cc15 - End of configuration. [testng] [2024-03-30 00:19:53,047] [pool-1-thread-5] Initializing /data/dennis/kidney_TFl_Two.bmp: [testng] 00:19:53,048 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 00:19:53,048 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:19:53,048 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-03-30_00-19-53.log] [testng] 00:19:53,049 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2cbae1f4 - End of configuration. [testng] [2024-03-30 00:19:53,056] [pool-1-thread-4] Initializing /data/curtis/image3.bmp: [testng] 00:19:53,056 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 00:19:53,057 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:19:53,058 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-03-30_00-19-53.log] [testng] 00:19:53,058 |-INFO in ch.qos.logback.core.sift.SiftProcessor@38115fc4 - End of configuration. [testng] [2024-03-30 00:19:53,070] [pool-1-thread-3] Initializing /data/brian/images/raw_a_rg.tiff: [testng] 00:19:53,070 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 00:19:53,070 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:19:53,071 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-03-30_00-19-53.log] [testng] 00:19:53,072 |-INFO in ch.qos.logback.core.sift.SiftProcessor@769ecc81 - End of configuration. [testng] [2024-03-30 00:19:53,105] [pool-1-thread-2] Initializing /data/dennis/kidney_TFl_Four.bmp: [testng] 00:19:53,105 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 00:19:53,106 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:19:53,107 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-03-30_00-19-53.log] [testng] 00:19:53,107 |-INFO in ch.qos.logback.core.sift.SiftProcessor@53b9df8c - End of configuration. [testng] [2024-03-30 00:19:55,244] [pool-1-thread-10] Initializing /data/dennis/kidney_TFl_Seven.bmp: [testng] [2024-03-30 00:19:55,250] [pool-1-thread-1] Initializing /data/big-images/8kx8k-grey.bmp: [testng] [2024-03-30 00:19:55,258] [pool-1-thread-4] Initializing /data/brian/images/raw_a_rg.bmp: [testng] [2024-03-30 00:19:55,265] [pool-1-thread-7] Initializing /data/dennis/kidney_TFl_One.bmp: [testng] [2024-03-30 00:19:55,272] [pool-1-thread-6] Initializing /data/curtis/image5.bmp: [testng] [2024-03-30 00:19:55,278] [pool-1-thread-9] Initializing /data/dennis/kidney_TFl_Five.bmp: [testng] [2024-03-30 00:19:55,285] [pool-1-thread-2] Initializing /data/qa-4538/22577136_Figure 2_A_ATF6 (GST)_13572.bmp: [testng] [2024-03-30 00:19:55,294] [pool-1-thread-5] Initializing /data/dennis/kidney_TFl_Six.bmp: [testng] [2024-03-30 00:19:55,301] [pool-1-thread-12] Initializing /data/stephane/holo0908.bmp: [testng] [2024-03-30 00:19:55,310] [pool-1-thread-3] Initializing /data/frank/cell_mask_error.bmp: [testng] [2024-03-30 00:19:56,234] [pool-1-thread-11] Initializing /data/dennis/kidney_TFl_Nine.bmp: [testng] [2024-03-30 00:19:56,262] [pool-1-thread-6] Initializing /data/bk/100427RBTLPC_FD3__A___5_T_001_ch_00_image_00025_Z_001.bmp: [testng] [2024-03-30 00:19:56,636] [pool-1-thread-4] Initializing /data/brian/images/kidney_TFl_1_greyscale.bmp: [testng] [2024-03-30 00:19:56,642] [pool-1-thread-11] Initializing /data/curtis/image4.bmp: [testng] [2024-03-30 00:19:56,691] [pool-1-thread-7] Initializing /data/big-images/8kx8k.bmp: [testng] [2024-03-30 00:19:56,757] [pool-1-thread-3] Initializing /data/brian/images/raw_a.bmp: [testng] [2024-03-30 00:19:56,763] [pool-1-thread-9] Initializing /data/brian/images/23srp5dksub.bmp: [testng] [2024-03-30 00:19:56,777] [pool-1-thread-10] Initializing /data/big-images/6kx6k-grey.bmp: [testng] [2024-03-30 00:19:56,786] [pool-1-thread-5] Initializing /data/dennis/kidney_TFl_Eight.bmp: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1643, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 37 seconds Finished: SUCCESS