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Started by upstream project "BIOFORMATS-test-repo" build number 7 originally caused by: Started by upstream project "Trigger" build number 10 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@3 [BIOFORMATS-test-folder@3] $ /bin/bash -xe /tmp/jenkins16291452428963549334.sh + '[' bmp = slidebook ']' ++ date +%u + '[' 4 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_979_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warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] warning: [options] source value 8 is obsolete and will be removed in a future release [javac] warning: [options] target value 8 is obsolete and will be removed in a future release [javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options. [javac] 4 warnings 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] 00:21:09,368 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 00:21:09,369 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - No custom configurators were discovered as a service. [testng] 00:21:09,369 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:21:09,370 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:21:09,371 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 00:21:09,371 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 00:21:09,371 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 00:21:09,371 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:21:09,372 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:21:09,372 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 00:21:09,373 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 00:21:09,373 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 00:21:09,550 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 00:21:09,550 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 00:21:09,576 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 00:21:09,577 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 00:21:09,584 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 00:21:09,584 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 00:21:09,584 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 00:21:09,584 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 00:21:09,585 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@d9345cd - End of configuration. [testng] 00:21:09,585 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@48aca48b - Registering current configuration as safe fallback point [testng] 00:21:09,585 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 213 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-03-21 00:21:09,595] [main] java.version = 21 [testng] 00:21:09,598 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 00:21:09,598 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:21:09,642 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-03-21_00-21-09.log] [testng] 00:21:09,644 |-INFO in ch.qos.logback.core.sift.SiftProcessor@71687585 - End of configuration. [testng] [2024-03-21 00:21:09,646] [main] testng.directory = /data [testng] [2024-03-21 00:21:09,646] [main] testng.configDirectory = /config [testng] [2024-03-21 00:21:09,658] [main] testng.multiplier = 1.0 [testng] [2024-03-21 00:21:09,659] [main] testng.in-memory = false [testng] [2024-03-21 00:21:09,659] [main] testng.allow-missing = false [testng] [2024-03-21 00:21:09,659] [main] user.language = en [testng] [2024-03-21 00:21:09,659] [main] user.country = ${user.country} [testng] [2024-03-21 00:21:09,659] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-03-21 00:21:10,263] [main] ---------------------------------------- [testng] [2024-03-21 00:21:10,263] [main] Total files: 31 [testng] [2024-03-21 00:21:10,263] [main] Scan time: 0.604 s (19 ms/file) [testng] [2024-03-21 00:21:10,263] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 31 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-03-21 00:21:13,200] [pool-1-thread-1] Initializing /data/curtis/image2.bmp: [testng] 00:21:13,202 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 00:21:13,202 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:21:13,204 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-03-21_00-21-13.log] [testng] 00:21:13,205 |-INFO in ch.qos.logback.core.sift.SiftProcessor@134d45a2 - End of configuration. [testng] [2024-03-21 00:21:13,250] [pool-1-thread-12] Initializing /data/dennis/kidney_TFl_Four.bmp: [testng] 00:21:13,250 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 00:21:13,250 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:21:13,251 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-03-21_00-21-13.log] [testng] 00:21:13,251 |-INFO in ch.qos.logback.core.sift.SiftProcessor@45a10322 - End of configuration. [testng] [2024-03-21 00:21:13,281] [pool-1-thread-11] Initializing /data/brian/images/raw_a_rg.tiff: [testng] 00:21:13,281 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 00:21:13,281 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:21:13,282 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-03-21_00-21-13.log] [testng] 00:21:13,282 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2540d21d - End of configuration. [testng] [2024-03-21 00:21:13,575] [pool-1-thread-10] Initializing /data/curtis/image3.bmp: [testng] 00:21:13,575 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 00:21:13,575 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:21:13,576 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-03-21_00-21-13.log] [testng] 00:21:13,576 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3f4606a3 - End of configuration. [testng] [2024-03-21 00:21:13,601] [pool-1-thread-9] Initializing /data/big-images/6kx6k.bmp: [testng] 00:21:13,601 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 00:21:13,601 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:21:13,602 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-03-21_00-21-13.log] [testng] 00:21:13,603 |-INFO in ch.qos.logback.core.sift.SiftProcessor@72e2cb2a - End of configuration. [testng] [2024-03-21 00:21:13,633] [pool-1-thread-8] Initializing /data/dennis/kidney_TFl_Eight.bmp: [testng] 00:21:13,634 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 00:21:13,634 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:21:13,635 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-03-21_00-21-13.log] [testng] 00:21:13,635 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5bb97f3e - End of configuration. [testng] [2024-03-21 00:21:13,662] [pool-1-thread-7] Initializing /data/frank/cell_mask_error.bmp: [testng] 00:21:13,663 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 00:21:13,663 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:21:13,663 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-03-21_00-21-13.log] [testng] 00:21:13,664 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2a8bea6f - End of configuration. [testng] [2024-03-21 00:21:13,689] [pool-1-thread-6] Initializing /data/brian/images/raw_a.bmp: [testng] 00:21:13,689 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 00:21:13,689 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:21:13,690 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-03-21_00-21-13.log] [testng] 00:21:13,690 |-INFO in ch.qos.logback.core.sift.SiftProcessor@380b8202 - End of configuration. [testng] [2024-03-21 00:21:13,709] [pool-1-thread-5] Initializing /data/stephane/holo0908.bmp: [testng] 00:21:13,709 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 00:21:13,709 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:21:13,710 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-03-21_00-21-13.log] [testng] 00:21:13,710 |-INFO in ch.qos.logback.core.sift.SiftProcessor@cc3d36e - End of configuration. [testng] [2024-03-21 00:21:13,738] [pool-1-thread-4] Initializing /data/dennis/kidney_TFl_Five.bmp: [testng] 00:21:13,739 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 00:21:13,739 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:21:13,739 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-03-21_00-21-13.log] [testng] 00:21:13,740 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7c311bb3 - End of configuration. [testng] [2024-03-21 00:21:13,768] [pool-1-thread-3] Initializing /data/brian/images/kidney_TFl_1_greyscale.bmp: [testng] 00:21:13,768 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 00:21:13,768 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:21:13,769 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-03-21_00-21-13.log] [testng] 00:21:13,770 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6df5ad27 - End of configuration. [testng] [2024-03-21 00:21:13,798] [pool-1-thread-2] Initializing /data/brian/images/kidney_TFl_1.bmp: [testng] 00:21:13,798 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 00:21:13,798 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:21:13,799 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-03-21_00-21-13.log] [testng] 00:21:13,799 |-INFO in ch.qos.logback.core.sift.SiftProcessor@99aaa86 - End of configuration. [testng] [2024-03-21 00:21:15,416] [pool-1-thread-10] Initializing /data/brian/images/raw_a_rg.bmp: [testng] [2024-03-21 00:21:15,443] [pool-1-thread-1] Initializing /data/brian/images/DMSOHigh_001.bmp: [testng] [2024-03-21 00:21:15,471] [pool-1-thread-3] Initializing /data/dennis/kidney_TFl_Nine.bmp: [testng] [2024-03-21 00:21:15,734] [pool-1-thread-6] Initializing /data/dennis/kidney_TFl_Seven.bmp: [testng] [2024-03-21 00:21:15,771] [pool-1-thread-2] Initializing /data/curtis/image4.bmp: [testng] [2024-03-21 00:21:15,794] [pool-1-thread-7] Initializing /data/bk/100427RBTLPC_FD3__A___5_T_001_ch_00_image_00025_Z_001.bmp: [testng] [2024-03-21 00:21:15,887] [pool-1-thread-8] Initializing /data/big-images/6kx6k-grey.bmp: [testng] [2024-03-21 00:21:15,995] [pool-1-thread-4] Initializing /data/dennis/kidney_TFl_Three.bmp: [testng] [2024-03-21 00:21:16,022] [pool-1-thread-12] Initializing /data/dennis/kidney_TFl_Six.bmp: [testng] [2024-03-21 00:21:16,094] [pool-1-thread-5] Initializing /data/big-images/8kx8k-grey.bmp: [testng] [2024-03-21 00:21:16,280] [pool-1-thread-10] Initializing /data/curtis/image5.bmp: [testng] [2024-03-21 00:21:16,326] [pool-1-thread-3] Initializing /data/ticket-12971/foo.bmp: [testng] [2024-03-21 00:21:16,419] [pool-1-thread-1] Initializing /data/brian/images/23srp5dksub.bmp: [testng] [2024-03-21 00:21:16,512] [pool-1-thread-11] Initializing /data/bk/ch_00.bmp: [testng] [2024-03-21 00:21:16,555] [pool-1-thread-2] Initializing /data/dennis/kidney_TFl_Two.bmp: [testng] [2024-03-21 00:21:16,722] [pool-1-thread-4] Initializing /data/big-images/8kx8k.bmp: [testng] [2024-03-21 00:21:16,786] [pool-1-thread-6] Initializing /data/dennis/kidney_TFl_One.bmp: [testng] [2024-03-21 00:21:16,826] [pool-1-thread-12] Initializing /data/curtis/image1.bmp: [testng] [2024-03-21 00:21:16,898] [pool-1-thread-10] Initializing /data/qa-4538/22577136_Figure 2_A_ATF6 (GST)_13572.bmp: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1643, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 30 seconds Finished: SUCCESS