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Started by upstream project "BIOFORMATS-test-repo" build number 273 originally caused by: Started by user devspace 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/jenkins15710267127619885000.sh + '[' bmp = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_42984_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 test-automated: [testng] File leak detector installed [testng] 07:05:01,432 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 07:05:01,434 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 07:05:01,434 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 07:05:01,436 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 07:05:01,436 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 07:05:01,436 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 07:05:01,436 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 0 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 07:05:01,436 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 07:05:01,437 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 07:05:01,437 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 07:05:01,437 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 07:05:01,437 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 07:05:01,682 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 07:05:01,682 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 07:05:01,712 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 07:05:01,713 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 07:05:01,721 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 07:05:01,721 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 07:05:01,721 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 07:05:01,721 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 07:05:01,722 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 07:05:01,722 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 07:05:01,723 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 286 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-11-29 07:05:01,733] [main] java.version = 1.8.0_342 [testng] 07:05:01,737 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 07:05:01,737 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:05:01,786 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-29_07-05-01.log] [testng] 07:05:01,787 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2024-11-29 07:05:01,789] [main] testng.directory = /data [testng] [2024-11-29 07:05:01,790] [main] testng.configDirectory = /config [testng] [2024-11-29 07:05:01,802] [main] testng.multiplier = 1.0 [testng] [2024-11-29 07:05:01,803] [main] testng.in-memory = false [testng] [2024-11-29 07:05:01,803] [main] testng.allow-missing = false [testng] [2024-11-29 07:05:01,803] [main] user.language = en [testng] [2024-11-29 07:05:01,803] [main] user.country = ${user.country} [testng] [2024-11-29 07:05:01,803] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-11-29 07:05:02,860] [main] ---------------------------------------- [testng] [2024-11-29 07:05:02,860] [main] Total files: 31 [testng] [2024-11-29 07:05:02,861] [main] Scan time: 1.057 s (34 ms/file) [testng] [2024-11-29 07:05:02,861] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 31 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-11-29 07:05:08,856] [pool-1-thread-1] Initializing /data/bk/100427RBTLPC_FD3__A___5_T_001_ch_00_image_00025_Z_001.bmp: [testng] 07:05:08,856 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 07:05:08,857 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:05:08,858 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-11-29_07-05-08.log] [testng] 07:05:08,858 |-INFO in ch.qos.logback.core.sift.SiftProcessor@68231e58 - End of configuration. [testng] [2024-11-29 07:05:08,968] [pool-1-thread-12] Initializing /data/brian/images/raw_a_rg.tiff: [testng] 07:05:08,968 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 07:05:08,969 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:05:08,969 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-11-29_07-05-08.log] [testng] 07:05:08,970 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3e92c10d - End of configuration. [testng] [2024-11-29 07:05:10,126] [pool-1-thread-11] Initializing /data/dennis/kidney_TFl_Eight.bmp: [testng] 07:05:10,126 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 07:05:10,126 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:05:10,127 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-11-29_07-05-10.log] [testng] 07:05:10,127 |-INFO in ch.qos.logback.core.sift.SiftProcessor@72dec48c - End of configuration. [testng] [2024-11-29 07:05:10,227] [pool-1-thread-10] Initializing /data/stephane/holo0908.bmp: [testng] 07:05:10,227 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 07:05:10,227 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:05:10,228 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-11-29_07-05-10.log] [testng] 07:05:10,228 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7a4ccf8 - End of configuration. [testng] [2024-11-29 07:05:10,332] [pool-1-thread-9] Initializing /data/brian/images/kidney_TFl_1_greyscale.bmp: [testng] 07:05:10,332 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 07:05:10,332 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:05:10,333 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-11-29_07-05-10.log] [testng] 07:05:10,333 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5b9a3d3c - End of configuration. [testng] [2024-11-29 07:05:10,428] [pool-1-thread-8] Initializing /data/big-images/6kx6k-grey.bmp: [testng] 07:05:10,428 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 07:05:10,428 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:05:10,429 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-11-29_07-05-10.log] [testng] 07:05:10,429 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2d53fff1 - End of configuration. [testng] [2024-11-29 07:05:10,525] [pool-1-thread-7] Initializing /data/brian/images/kidney_TFl_1.bmp: [testng] 07:05:10,525 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 07:05:10,525 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:05:10,526 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-11-29_07-05-10.log] [testng] 07:05:10,526 |-INFO in ch.qos.logback.core.sift.SiftProcessor@aad8511 - End of configuration. [testng] [2024-11-29 07:05:10,631] [pool-1-thread-6] Initializing /data/bk/ch_00.bmp: [testng] 07:05:10,631 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 07:05:10,631 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:05:10,632 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-11-29_07-05-10.log] [testng] 07:05:10,633 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6015eb94 - End of configuration. [testng] [2024-11-29 07:05:10,738] [pool-1-thread-5] Initializing /data/curtis/image2.bmp: [testng] 07:05:10,739 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 07:05:10,739 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:05:10,741 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-11-29_07-05-10.log] [testng] 07:05:10,741 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37f3aef6 - End of configuration. [testng] [2024-11-29 07:05:10,853] [pool-1-thread-4] Initializing /data/big-images/8kx8k-grey.bmp: [testng] 07:05:10,854 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 07:05:10,854 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:05:10,854 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-11-29_07-05-10.log] [testng] 07:05:10,855 |-INFO in ch.qos.logback.core.sift.SiftProcessor@71f80340 - End of configuration. [testng] [2024-11-29 07:05:11,070] [pool-1-thread-3] Initializing /data/dennis/kidney_TFl_Nine.bmp: [testng] 07:05:11,071 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 07:05:11,071 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:05:11,071 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-11-29_07-05-11.log] [testng] 07:05:11,072 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3572de15 - End of configuration. [testng] [2024-11-29 07:05:11,397] [pool-1-thread-2] Initializing /data/curtis/image4.bmp: [testng] 07:05:11,397 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 07:05:11,397 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:05:11,398 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-11-29_07-05-11.log] [testng] 07:05:11,398 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4240aa59 - End of configuration. [testng] [2024-11-29 07:05:17,339] [pool-1-thread-9] Initializing /data/dennis/kidney_TFl_Two.bmp: [testng] [2024-11-29 07:05:17,433] [pool-1-thread-5] Initializing /data/qa-4538/22577136_Figure 2_A_ATF6 (GST)_13572.bmp: [testng] [2024-11-29 07:05:17,525] [pool-1-thread-2] Initializing /data/curtis/image5.bmp: [testng] [2024-11-29 07:05:17,623] [pool-1-thread-7] Initializing /data/dennis/kidney_TFl_One.bmp: [testng] [2024-11-29 07:05:17,752] [pool-1-thread-3] Initializing /data/curtis/image1.bmp: [testng] [2024-11-29 07:05:17,848] [pool-1-thread-11] Initializing /data/dennis/kidney_TFl_Seven.bmp: [testng] [2024-11-29 07:05:17,945] [pool-1-thread-10] Initializing /data/big-images/6kx6k.bmp: [testng] [2024-11-29 07:05:18,042] [pool-1-thread-6] Initializing /data/dennis/kidney_TFl_Six.bmp: [testng] [2024-11-29 07:05:18,204] [pool-1-thread-1] Initializing /data/brian/images/raw_a_rg.bmp: [testng] [2024-11-29 07:05:20,678] [pool-1-thread-3] Initializing /data/brian/images/23srp5dksub.bmp: [testng] [2024-11-29 07:05:20,822] [pool-1-thread-2] Initializing /data/dennis/kidney_TFl_Three.bmp: [testng] [2024-11-29 07:05:20,950] [pool-1-thread-9] Initializing /data/curtis/image3.bmp: [testng] [2024-11-29 07:05:21,063] [pool-1-thread-6] Initializing /data/ticket-12971/foo.bmp: [testng] [2024-11-29 07:05:21,170] [pool-1-thread-7] Initializing /data/dennis/kidney_TFl_Five.bmp: [testng] [2024-11-29 07:05:21,273] [pool-1-thread-11] Initializing /data/brian/images/raw_a.bmp: [testng] [2024-11-29 07:05:21,404] [pool-1-thread-1] Initializing /data/dennis/kidney_TFl_Four.bmp: [testng] [2024-11-29 07:05:22,099] [pool-1-thread-5] Initializing /data/big-images/8kx8k.bmp: [testng] [2024-11-29 07:05:22,588] [pool-1-thread-8] Initializing /data/frank/cell_mask_error.bmp: [testng] [2024-11-29 07:05:23,404] [pool-1-thread-9] Initializing /data/brian/images/DMSOHigh_001.bmp: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1643, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 41 seconds Finished: SUCCESS