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Started by upstream project "BIOFORMATS-test-repo" build number 68 originally caused by: Started by upstream project "Trigger" build number 76 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/jenkins5499984488058644946.sh + '[' bmp = slidebook ']' ++ date +%u + '[' 7 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_10166_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] 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] 01:22:45,500 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 01:22:45,502 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service. [testng] 01:22:45,502 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:22:45,504 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:22:45,505 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:22:45,506 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:22:45,507 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 3 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 01:22:45,507 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:22:45,508 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:22:45,509 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:22:45,509 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:22:45,510 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:22:45,748 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:22:45,748 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:22:45,782 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:22:45,783 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:22:45,791 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:22:45,791 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:22:45,791 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:22:45,792 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:22:45,792 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration. [testng] 01:22:45,793 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point [testng] 01:22:45,793 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 285 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-05-19 01:22:45,807] [main] java.version = 17.0.2 [testng] 01:22:45,812 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:22:45,812 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:22:45,884 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-05-19_01-22-45.log] [testng] 01:22:45,886 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration. [testng] [2024-05-19 01:22:45,890] [main] testng.directory = /data [testng] [2024-05-19 01:22:45,891] [main] testng.configDirectory = /config [testng] [2024-05-19 01:22:45,905] [main] testng.multiplier = 1.0 [testng] [2024-05-19 01:22:45,906] [main] testng.in-memory = false [testng] [2024-05-19 01:22:45,906] [main] testng.allow-missing = false [testng] [2024-05-19 01:22:45,906] [main] user.language = en [testng] [2024-05-19 01:22:45,906] [main] user.country = ${user.country} [testng] [2024-05-19 01:22:45,907] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-05-19 01:22:46,541] [main] ---------------------------------------- [testng] [2024-05-19 01:22:46,541] [main] Total files: 31 [testng] [2024-05-19 01:22:46,541] [main] Scan time: 0.634 s (20 ms/file) [testng] [2024-05-19 01:22:46,542] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 31 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-05-19 01:22:48,262] [pool-1-thread-1] Initializing /data/bk/ch_00.bmp: [testng] 01:22:48,262 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:22:48,262 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:22:48,264 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-05-19_01-22-48.log] [testng] 01:22:48,264 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7f1a0b79 - End of configuration. [testng] [2024-05-19 01:22:48,281] [pool-1-thread-12] Initializing /data/big-images/6kx6k.bmp: [testng] 01:22:48,282 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:22:48,282 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:22:48,283 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-05-19_01-22-48.log] [testng] 01:22:48,283 |-INFO in ch.qos.logback.core.sift.SiftProcessor@30aa38f1 - End of configuration. [testng] [2024-05-19 01:22:48,362] [pool-1-thread-11] Initializing /data/ticket-12971/foo.bmp: [testng] 01:22:48,362 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:22:48,363 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:22:48,363 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-05-19_01-22-48.log] [testng] 01:22:48,364 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7385e7cb - End of configuration. [testng] [2024-05-19 01:22:48,369] [pool-1-thread-10] Initializing /data/dennis/kidney_TFl_Three.bmp: [testng] 01:22:48,370 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:22:48,370 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:22:48,370 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-05-19_01-22-48.log] [testng] 01:22:48,371 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36b18e2a - End of configuration. [testng] [2024-05-19 01:22:48,380] [pool-1-thread-9] Initializing /data/brian/images/raw_a.bmp: [testng] 01:22:48,381 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:22:48,381 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:22:48,382 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-05-19_01-22-48.log] [testng] 01:22:48,382 |-INFO in ch.qos.logback.core.sift.SiftProcessor@42092bac - End of configuration. [testng] [2024-05-19 01:22:48,393] [pool-1-thread-8] Initializing /data/brian/images/23srp5dksub.bmp: [testng] 01:22:48,394 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:22:48,394 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:22:48,395 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-05-19_01-22-48.log] [testng] 01:22:48,395 |-INFO in ch.qos.logback.core.sift.SiftProcessor@74b2f251 - End of configuration. [testng] [2024-05-19 01:22:48,422] [pool-1-thread-7] Initializing /data/qa-4538/22577136_Figure 2_A_ATF6 (GST)_13572.bmp: [testng] 01:22:48,422 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:22:48,423 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:22:48,424 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-05-19_01-22-48.log] [testng] 01:22:48,424 |-INFO in ch.qos.logback.core.sift.SiftProcessor@8993ec1 - End of configuration. [testng] [2024-05-19 01:22:48,436] [pool-1-thread-6] Initializing /data/dennis/kidney_TFl_Two.bmp: [testng] 01:22:48,437 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:22:48,437 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:22:48,441 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-05-19_01-22-48.log] [testng] 01:22:48,442 |-INFO in ch.qos.logback.core.sift.SiftProcessor@25f195f1 - End of configuration. [testng] [2024-05-19 01:22:48,452] [pool-1-thread-5] Initializing /data/curtis/image1.bmp: [testng] 01:22:48,453 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:22:48,453 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:22:48,454 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-05-19_01-22-48.log] [testng] 01:22:48,454 |-INFO in ch.qos.logback.core.sift.SiftProcessor@60aae8bf - End of configuration. [testng] [2024-05-19 01:22:48,463] [pool-1-thread-4] Initializing /data/big-images/8kx8k-grey.bmp: [testng] 01:22:48,463 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:22:48,463 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:22:48,464 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-05-19_01-22-48.log] [testng] 01:22:48,465 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6c6245ae - End of configuration. [testng] [2024-05-19 01:22:48,486] [pool-1-thread-3] Initializing /data/dennis/kidney_TFl_Seven.bmp: [testng] 01:22:48,486 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:22:48,486 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:22:48,488 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-05-19_01-22-48.log] [testng] 01:22:48,488 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6963f6d7 - End of configuration. [testng] [2024-05-19 01:22:48,500] [pool-1-thread-2] Initializing /data/dennis/kidney_TFl_Four.bmp: [testng] 01:22:48,501 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:22:48,501 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:22:48,502 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-05-19_01-22-48.log] [testng] 01:22:48,503 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6473f3cd - End of configuration. [testng] [2024-05-19 01:22:50,578] [pool-1-thread-9] Initializing /data/brian/images/raw_a_rg.bmp: [testng] [2024-05-19 01:22:50,585] [pool-1-thread-6] Initializing /data/curtis/image2.bmp: [testng] [2024-05-19 01:22:50,592] [pool-1-thread-10] Initializing /data/curtis/image3.bmp: [testng] [2024-05-19 01:22:50,604] [pool-1-thread-11] Initializing /data/frank/cell_mask_error.bmp: [testng] [2024-05-19 01:22:50,611] [pool-1-thread-2] Initializing /data/brian/images/DMSOHigh_001.bmp: [testng] [2024-05-19 01:22:50,630] [pool-1-thread-5] Initializing /data/dennis/kidney_TFl_Eight.bmp: [testng] [2024-05-19 01:22:50,649] [pool-1-thread-3] Initializing /data/brian/images/raw_a_rg.tiff: [testng] [2024-05-19 01:22:50,694] [pool-1-thread-8] Initializing /data/brian/images/kidney_TFl_1_greyscale.bmp: [testng] [2024-05-19 01:22:50,702] [pool-1-thread-1] Initializing /data/stephane/holo0908.bmp: [testng] [2024-05-19 01:22:51,548] [pool-1-thread-3] Initializing /data/big-images/8kx8k.bmp: [testng] [2024-05-19 01:22:51,648] [pool-1-thread-6] Initializing /data/curtis/image4.bmp: [testng] [2024-05-19 01:22:51,652] [pool-1-thread-10] Initializing /data/dennis/kidney_TFl_Five.bmp: [testng] [2024-05-19 01:22:51,659] [pool-1-thread-7] Initializing /data/bk/100427RBTLPC_FD3__A___5_T_001_ch_00_image_00025_Z_001.bmp: [testng] [2024-05-19 01:22:51,947] [pool-1-thread-8] Initializing /data/curtis/image5.bmp: [testng] [2024-05-19 01:22:52,095] [pool-1-thread-6] Initializing /data/brian/images/kidney_TFl_1.bmp: [testng] [2024-05-19 01:22:52,106] [pool-1-thread-9] Initializing /data/dennis/kidney_TFl_Nine.bmp: [testng] [2024-05-19 01:22:52,162] [pool-1-thread-11] Initializing /data/dennis/kidney_TFl_One.bmp: [testng] [2024-05-19 01:22:52,234] [pool-1-thread-8] Initializing /data/dennis/kidney_TFl_Six.bmp: [testng] [2024-05-19 01:22:52,242] [pool-1-thread-5] Initializing /data/big-images/6kx6k-grey.bmp: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1643, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 40 seconds Finished: SUCCESS