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Started by upstream project "BIOFORMATS-test-repo" build number 249 originally caused by: Started by upstream project "Trigger" build number 273 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/jenkins2856583236472495400.sh + '[' bmp = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_39177_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] 00:30:48,816 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 00:30:48,818 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 00:30:48,818 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:30:48,819 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:30:48,819 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 00:30:48,819 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 00:30:48,820 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 00:30:48,820 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:30:48,820 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:30:48,820 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 00:30:48,821 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 00:30:48,821 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 00:30:49,061 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 00:30:49,061 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 00:30:49,090 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 00:30:49,090 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 00:30:49,099 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 00:30:49,099 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 00:30:49,099 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 00:30:49,100 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 00:30:49,100 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 00:30:49,101 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 00:30:49,101 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 281 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-11-08 00:30:49,111] [main] java.version = 1.8.0_342 [testng] 00:30:49,114 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 00:30:49,114 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:49,160 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-08_00-30-49.log] [testng] 00:30:49,162 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2024-11-08 00:30:49,164] [main] testng.directory = /data [testng] [2024-11-08 00:30:49,164] [main] testng.configDirectory = /config [testng] [2024-11-08 00:30:49,176] [main] testng.multiplier = 1.0 [testng] [2024-11-08 00:30:49,176] [main] testng.in-memory = false [testng] [2024-11-08 00:30:49,177] [main] testng.allow-missing = false [testng] [2024-11-08 00:30:49,177] [main] user.language = en [testng] [2024-11-08 00:30:49,177] [main] user.country = ${user.country} [testng] [2024-11-08 00:30:49,177] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-11-08 00:30:50,873] [main] ---------------------------------------- [testng] [2024-11-08 00:30:50,873] [main] Total files: 31 [testng] [2024-11-08 00:30:50,873] [main] Scan time: 1.696 s (54 ms/file) [testng] [2024-11-08 00:30:50,873] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 31 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-11-08 00:30:56,607] [pool-1-thread-1] Initializing /data/bk/100427RBTLPC_FD3__A___5_T_001_ch_00_image_00025_Z_001.bmp: [testng] 00:30:56,608 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 00:30:56,608 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:56,609 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-11-08_00-30-56.log] [testng] 00:30:56,609 |-INFO in ch.qos.logback.core.sift.SiftProcessor@126a0720 - End of configuration. [testng] [2024-11-08 00:30:56,717] [pool-1-thread-12] Initializing /data/brian/images/raw_a_rg.tiff: [testng] 00:30:56,717 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 00:30:56,717 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:56,718 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-11-08_00-30-56.log] [testng] 00:30:56,718 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1808ef3d - End of configuration. [testng] [2024-11-08 00:30:57,926] [pool-1-thread-11] Initializing /data/dennis/kidney_TFl_Eight.bmp: [testng] 00:30:57,927 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 00:30:57,927 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:57,927 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-11-08_00-30-57.log] [testng] 00:30:57,928 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2da5eb40 - End of configuration. [testng] [2024-11-08 00:30:58,024] [pool-1-thread-10] Initializing /data/stephane/holo0908.bmp: [testng] 00:30:58,024 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 00:30:58,024 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:58,025 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-11-08_00-30-58.log] [testng] 00:30:58,025 |-INFO in ch.qos.logback.core.sift.SiftProcessor@a2e29ff - End of configuration. [testng] [2024-11-08 00:30:58,193] [pool-1-thread-9] Initializing /data/brian/images/kidney_TFl_1_greyscale.bmp: [testng] 00:30:58,193 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 00:30:58,193 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:58,194 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-11-08_00-30-58.log] [testng] 00:30:58,194 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6066dead - End of configuration. [testng] [2024-11-08 00:30:58,284] [pool-1-thread-8] Initializing /data/big-images/6kx6k-grey.bmp: [testng] 00:30:58,284 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 00:30:58,285 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:58,285 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-11-08_00-30-58.log] [testng] 00:30:58,286 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1914ad7c - End of configuration. [testng] [2024-11-08 00:30:58,382] [pool-1-thread-7] Initializing /data/brian/images/kidney_TFl_1.bmp: [testng] 00:30:58,382 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 00:30:58,382 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:58,383 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-11-08_00-30-58.log] [testng] 00:30:58,383 |-INFO in ch.qos.logback.core.sift.SiftProcessor@346cc407 - End of configuration. [testng] [2024-11-08 00:30:58,493] [pool-1-thread-6] Initializing /data/bk/ch_00.bmp: [testng] 00:30:58,493 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 00:30:58,493 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:58,494 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-11-08_00-30-58.log] [testng] 00:30:58,494 |-INFO in ch.qos.logback.core.sift.SiftProcessor@734f37e8 - End of configuration. [testng] [2024-11-08 00:30:58,599] [pool-1-thread-5] Initializing /data/curtis/image2.bmp: [testng] 00:30:58,599 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 00:30:58,599 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:58,600 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-11-08_00-30-58.log] [testng] 00:30:58,600 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6e7d7029 - End of configuration. [testng] [2024-11-08 00:30:58,710] [pool-1-thread-4] Initializing /data/big-images/8kx8k-grey.bmp: [testng] 00:30:58,710 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 00:30:58,711 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:58,711 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-11-08_00-30-58.log] [testng] 00:30:58,712 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7ba9a2d7 - End of configuration. [testng] [2024-11-08 00:30:58,815] [pool-1-thread-3] Initializing /data/dennis/kidney_TFl_Nine.bmp: [testng] 00:30:58,815 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 00:30:58,815 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:58,816 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-11-08_00-30-58.log] [testng] 00:30:58,816 |-INFO in ch.qos.logback.core.sift.SiftProcessor@450a92db - End of configuration. [testng] [2024-11-08 00:30:58,949] [pool-1-thread-2] Initializing /data/curtis/image4.bmp: [testng] 00:30:58,949 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 00:30:58,949 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:58,950 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-11-08_00-30-58.log] [testng] 00:30:58,950 |-INFO in ch.qos.logback.core.sift.SiftProcessor@28a25918 - End of configuration. [testng] [2024-11-08 00:31:02,298] [pool-1-thread-9] Initializing /data/dennis/kidney_TFl_Two.bmp: [testng] [2024-11-08 00:31:02,389] [pool-1-thread-10] Initializing /data/curtis/image5.bmp: [testng] [2024-11-08 00:31:02,487] [pool-1-thread-5] Initializing /data/dennis/kidney_TFl_One.bmp: [testng] [2024-11-08 00:31:02,607] [pool-1-thread-2] Initializing /data/curtis/image1.bmp: [testng] [2024-11-08 00:31:02,699] [pool-1-thread-7] Initializing /data/dennis/kidney_TFl_Seven.bmp: [testng] [2024-11-08 00:31:02,794] [pool-1-thread-3] Initializing /data/big-images/6kx6k.bmp: [testng] [2024-11-08 00:31:02,924] [pool-1-thread-11] Initializing /data/dennis/kidney_TFl_Six.bmp: [testng] [2024-11-08 00:31:03,092] [pool-1-thread-6] Initializing /data/qa-4538/22577136_Figure 2_A_ATF6 (GST)_13572.bmp: [testng] [2024-11-08 00:31:03,328] [pool-1-thread-1] Initializing /data/brian/images/raw_a_rg.bmp: [testng] [2024-11-08 00:31:05,250] [pool-1-thread-2] Initializing /data/brian/images/23srp5dksub.bmp: [testng] [2024-11-08 00:31:05,380] [pool-1-thread-5] Initializing /data/brian/images/raw_a.bmp: [testng] [2024-11-08 00:31:05,780] [pool-1-thread-10] Initializing /data/dennis/kidney_TFl_Three.bmp: [testng] [2024-11-08 00:31:05,883] [pool-1-thread-7] Initializing /data/curtis/image3.bmp: [testng] [2024-11-08 00:31:05,982] [pool-1-thread-9] Initializing /data/ticket-12971/foo.bmp: [testng] [2024-11-08 00:31:06,074] [pool-1-thread-11] Initializing /data/dennis/kidney_TFl_Five.bmp: [testng] [2024-11-08 00:31:06,568] [pool-1-thread-1] Initializing /data/dennis/kidney_TFl_Four.bmp: [testng] [2024-11-08 00:31:07,275] [pool-1-thread-6] Initializing /data/big-images/8kx8k.bmp: [testng] [2024-11-08 00:31:08,001] [pool-1-thread-8] Initializing /data/frank/cell_mask_error.bmp: [testng] [2024-11-08 00:31:08,913] [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: 43 seconds Finished: SUCCESS