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Started by upstream project "BIOFORMATS-test-repo" build number 133 originally caused by: Started by upstream project "Trigger" build number 153 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@5 [BIOFORMATS-test-folder@5] $ /bin/bash -xe /tmp/jenkins5540416543348274801.sh + '[' bmp = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_20826_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] 01:25:37,514 |-INFO in ch.qos.logback.classic.util.ContextInitializer@6b4a4e18 - No custom configurators were discovered as a service. [testng] 01:25:37,514 |-INFO in ch.qos.logback.classic.util.ContextInitializer@6b4a4e18 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:25:37,516 |-INFO in ch.qos.logback.classic.util.ContextInitializer@6b4a4e18 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:25:37,517 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:25:37,517 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:25:37,517 |-INFO in ch.qos.logback.classic.util.ContextInitializer@6b4a4e18 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 01:25:37,517 |-INFO in ch.qos.logback.classic.util.ContextInitializer@6b4a4e18 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:25:37,518 |-INFO in ch.qos.logback.classic.util.ContextInitializer@6b4a4e18 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:25:37,519 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:25:37,519 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:25:37,519 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:25:37,864 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:25:37,865 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:25:37,897 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:25:37,897 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:25:37,907 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:25:37,907 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:25:37,908 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:25:37,908 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:25:37,908 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 01:25:37,909 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 01:25:37,909 |-INFO in ch.qos.logback.classic.util.ContextInitializer@6b4a4e18 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 391 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-07-26 01:25:37,921] [main] java.version = 1.8.0_342 [testng] 01:25:37,925 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:25:37,925 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:25:37,980 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-07-26_01-25-37.log] [testng] 01:25:37,983 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-07-26 01:25:37,986] [main] testng.directory = /data [testng] [2024-07-26 01:25:37,986] [main] testng.configDirectory = /config [testng] [2024-07-26 01:25:38,001] [main] testng.multiplier = 1.0 [testng] [2024-07-26 01:25:38,002] [main] testng.in-memory = false [testng] [2024-07-26 01:25:38,002] [main] testng.allow-missing = false [testng] [2024-07-26 01:25:38,002] [main] user.language = en [testng] [2024-07-26 01:25:38,002] [main] user.country = ${user.country} [testng] [2024-07-26 01:25:38,002] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-07-26 01:25:38,726] [main] ---------------------------------------- [testng] [2024-07-26 01:25:38,727] [main] Total files: 31 [testng] [2024-07-26 01:25:38,727] [main] Scan time: 0.724 s (23 ms/file) [testng] [2024-07-26 01:25:38,727] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 31 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-07-26 01:25:41,279] [pool-1-thread-1] Initializing /data/bk/ch_00.bmp: [testng] 01:25:41,280 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:25:41,280 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:25:41,281 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-07-26_01-25-41.log] [testng] 01:25:41,281 |-INFO in ch.qos.logback.core.sift.SiftProcessor@54e0299b - End of configuration. [testng] [2024-07-26 01:25:41,300] [pool-1-thread-12] Initializing /data/dennis/kidney_TFl_Five.bmp: [testng] 01:25:41,300 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:25:41,301 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:25:41,301 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-07-26_01-25-41.log] [testng] 01:25:41,302 |-INFO in ch.qos.logback.core.sift.SiftProcessor@306bca0a - End of configuration. [testng] [2024-07-26 01:25:41,310] [pool-1-thread-11] Initializing /data/ticket-12971/foo.bmp: [testng] 01:25:41,310 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:25:41,311 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:25:41,311 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-07-26_01-25-41.log] [testng] 01:25:41,312 |-INFO in ch.qos.logback.core.sift.SiftProcessor@765559b0 - End of configuration. [testng] [2024-07-26 01:25:41,318] [pool-1-thread-10] Initializing /data/brian/images/raw_a.bmp: [testng] 01:25:41,318 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:25:41,318 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:25:41,319 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-07-26_01-25-41.log] [testng] 01:25:41,320 |-INFO in ch.qos.logback.core.sift.SiftProcessor@375f7b74 - End of configuration. [testng] [2024-07-26 01:25:41,328] [pool-1-thread-9] Initializing /data/big-images/6kx6k.bmp: [testng] 01:25:41,328 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:25:41,328 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:25:41,329 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-07-26_01-25-41.log] [testng] 01:25:41,329 |-INFO in ch.qos.logback.core.sift.SiftProcessor@556bf4a - End of configuration. [testng] [2024-07-26 01:25:41,341] [pool-1-thread-8] Initializing /data/brian/images/kidney_TFl_1_greyscale.bmp: [testng] 01:25:41,341 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:25:41,341 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:25:41,342 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-07-26_01-25-41.log] [testng] 01:25:41,342 |-INFO in ch.qos.logback.core.sift.SiftProcessor@28541b46 - End of configuration. [testng] [2024-07-26 01:25:41,349] [pool-1-thread-7] Initializing /data/brian/images/23srp5dksub.bmp: [testng] 01:25:41,350 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:25:41,350 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:25:41,351 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-07-26_01-25-41.log] [testng] 01:25:41,351 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6b9fc782 - End of configuration. [testng] [2024-07-26 01:25:41,407] [pool-1-thread-6] Initializing /data/curtis/image3.bmp: [testng] 01:25:41,407 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:25:41,407 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:25:41,408 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-07-26_01-25-41.log] [testng] 01:25:41,409 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37447c4b - End of configuration. [testng] [2024-07-26 01:25:41,415] [pool-1-thread-5] Initializing /data/big-images/6kx6k-grey.bmp: [testng] 01:25:41,415 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:25:41,415 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:25:41,416 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-07-26_01-25-41.log] [testng] 01:25:41,417 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6778099d - End of configuration. [testng] [2024-07-26 01:25:41,431] [pool-1-thread-4] Initializing /data/big-images/8kx8k.bmp: [testng] 01:25:41,431 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:25:41,431 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:25:41,432 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-07-26_01-25-41.log] [testng] 01:25:41,433 |-INFO in ch.qos.logback.core.sift.SiftProcessor@106c6a8a - End of configuration. [testng] [2024-07-26 01:25:41,447] [pool-1-thread-3] Initializing /data/dennis/kidney_TFl_One.bmp: [testng] 01:25:41,448 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:25:41,448 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:25:41,448 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-07-26_01-25-41.log] [testng] 01:25:41,449 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6c40181f - End of configuration. [testng] [2024-07-26 01:25:41,461] [pool-1-thread-2] Initializing /data/curtis/image5.bmp: [testng] 01:25:41,461 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:25:41,462 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:25:41,462 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-07-26_01-25-41.log] [testng] 01:25:41,463 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36ef0871 - End of configuration. [testng] [2024-07-26 01:25:43,382] [pool-1-thread-10] Initializing /data/curtis/image1.bmp: [testng] [2024-07-26 01:25:43,387] [pool-1-thread-8] Initializing /data/dennis/kidney_TFl_Eight.bmp: [testng] [2024-07-26 01:25:43,393] [pool-1-thread-6] Initializing /data/dennis/kidney_TFl_Seven.bmp: [testng] [2024-07-26 01:25:43,398] [pool-1-thread-11] Initializing /data/curtis/image2.bmp: [testng] [2024-07-26 01:25:43,404] [pool-1-thread-12] Initializing /data/dennis/kidney_TFl_Six.bmp: [testng] [2024-07-26 01:25:43,409] [pool-1-thread-3] Initializing /data/big-images/8kx8k-grey.bmp: [testng] [2024-07-26 01:25:43,417] [pool-1-thread-2] Initializing /data/dennis/kidney_TFl_Three.bmp: [testng] [2024-07-26 01:25:43,427] [pool-1-thread-7] Initializing /data/frank/cell_mask_error.bmp: [testng] [2024-07-26 01:25:43,962] [pool-1-thread-1] Initializing /data/stephane/holo0908.bmp: [testng] [2024-07-26 01:25:43,974] [pool-1-thread-10] Initializing /data/brian/images/raw_a_rg.tiff: [testng] [2024-07-26 01:25:44,022] [pool-1-thread-11] Initializing /data/brian/images/DMSOHigh_001.bmp: [testng] [2024-07-26 01:25:44,349] [pool-1-thread-8] Initializing /data/dennis/kidney_TFl_Two.bmp: [testng] [2024-07-26 01:25:44,353] [pool-1-thread-7] Initializing /data/curtis/image4.bmp: [testng] [2024-07-26 01:25:44,357] [pool-1-thread-2] Initializing /data/dennis/kidney_TFl_Four.bmp: [testng] [2024-07-26 01:25:44,362] [pool-1-thread-12] Initializing /data/brian/images/raw_a_rg.bmp: [testng] [2024-07-26 01:25:44,377] [pool-1-thread-6] Initializing /data/dennis/kidney_TFl_Nine.bmp: [testng] [2024-07-26 01:25:44,722] [pool-1-thread-7] Initializing /data/bk/100427RBTLPC_FD3__A___5_T_001_ch_00_image_00025_Z_001.bmp: [testng] [2024-07-26 01:25:44,841] [pool-1-thread-10] Initializing /data/qa-4538/22577136_Figure 2_A_ATF6 (GST)_13572.bmp: [testng] [2024-07-26 01:25:44,883] [pool-1-thread-12] Initializing /data/brian/images/kidney_TFl_1.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