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Started by upstream project "BIOFORMATS-test-repo" build number 289 originally caused by: Started by upstream project "Trigger" build number 308 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@8 [BIOFORMATS-test-folder@8] $ /bin/bash -xe /tmp/jenkins8061396855813843301.sh + '[' bmp = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_45610_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] 00:34:38,783 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 00:34:38,784 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 00:34:38,784 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:34:38,785 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:34:38,785 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 00:34:38,786 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 00:34:38,786 |-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] 00:34:38,786 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:34:38,786 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:34:38,787 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 00:34:38,787 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 00:34:38,787 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 00:34:38,998 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 00:34:38,998 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 00:34:39,023 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 00:34:39,023 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 00:34:39,031 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 00:34:39,031 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 00:34:39,031 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 00:34:39,031 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 00:34:39,031 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 00:34:39,032 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 00:34:39,032 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 246 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-12-13 00:34:39,041] [main] java.version = 1.8.0_342 [testng] 00:34:39,044 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 00:34:39,044 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:34:39,087 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-13_00-34-39.log] [testng] 00:34:39,088 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2024-12-13 00:34:39,090] [main] testng.directory = /data [testng] [2024-12-13 00:34:39,090] [main] testng.configDirectory = /config [testng] [2024-12-13 00:34:39,101] [main] testng.multiplier = 1.0 [testng] [2024-12-13 00:34:39,101] [main] testng.in-memory = false [testng] [2024-12-13 00:34:39,101] [main] testng.allow-missing = false [testng] [2024-12-13 00:34:39,101] [main] user.language = en [testng] [2024-12-13 00:34:39,101] [main] user.country = ${user.country} [testng] [2024-12-13 00:34:39,101] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-12-13 00:34:40,336] [main] ---------------------------------------- [testng] [2024-12-13 00:34:40,336] [main] Total files: 31 [testng] [2024-12-13 00:34:40,337] [main] Scan time: 1.235 s (39 ms/file) [testng] [2024-12-13 00:34:40,337] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 31 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-12-13 00:34:48,777] [pool-1-thread-1] Initializing /data/bk/100427RBTLPC_FD3__A___5_T_001_ch_00_image_00025_Z_001.bmp: [testng] 00:34:48,777 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 00:34:48,777 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:34:48,778 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-13_00-34-48.log] [testng] 00:34:48,779 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5a59646d - End of configuration. [testng] [2024-12-13 00:34:48,949] [pool-1-thread-12] Initializing /data/brian/images/raw_a_rg.tiff: [testng] 00:34:48,949 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 00:34:48,949 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:34:48,950 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-13_00-34-48.log] [testng] 00:34:48,950 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37a80c41 - End of configuration. [testng] [2024-12-13 00:34:50,911] [pool-1-thread-11] Initializing /data/dennis/kidney_TFl_Eight.bmp: [testng] 00:34:50,911 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 00:34:50,911 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:34:50,911 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-13_00-34-50.log] [testng] 00:34:50,912 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4ecbe74d - End of configuration. [testng] [2024-12-13 00:34:51,047] [pool-1-thread-10] Initializing /data/stephane/holo0908.bmp: [testng] 00:34:51,048 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 00:34:51,048 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:34:51,049 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-13_00-34-51.log] [testng] 00:34:51,049 |-INFO in ch.qos.logback.core.sift.SiftProcessor@229eb031 - End of configuration. [testng] [2024-12-13 00:34:51,197] [pool-1-thread-9] Initializing /data/brian/images/kidney_TFl_1_greyscale.bmp: [testng] 00:34:51,198 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 00:34:51,198 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:34:51,198 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-13_00-34-51.log] [testng] 00:34:51,199 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3aa9d110 - End of configuration. [testng] [2024-12-13 00:34:51,333] [pool-1-thread-8] Initializing /data/big-images/6kx6k-grey.bmp: [testng] 00:34:51,333 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 00:34:51,333 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:34:51,334 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-13_00-34-51.log] [testng] 00:34:51,334 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3597ecc4 - End of configuration. [testng] [2024-12-13 00:34:51,484] [pool-1-thread-7] Initializing /data/brian/images/kidney_TFl_1.bmp: [testng] 00:34:51,485 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 00:34:51,485 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:34:51,485 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-13_00-34-51.log] [testng] 00:34:51,486 |-INFO in ch.qos.logback.core.sift.SiftProcessor@104c20aa - End of configuration. [testng] [2024-12-13 00:34:51,692] [pool-1-thread-6] Initializing /data/bk/ch_00.bmp: [testng] 00:34:51,693 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 00:34:51,693 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:34:51,694 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-13_00-34-51.log] [testng] 00:34:51,694 |-INFO in ch.qos.logback.core.sift.SiftProcessor@52872ea7 - End of configuration. [testng] [2024-12-13 00:34:51,957] [pool-1-thread-5] Initializing /data/curtis/image2.bmp: [testng] 00:34:51,957 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 00:34:51,957 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:34:51,958 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-13_00-34-51.log] [testng] 00:34:51,958 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4d6c2376 - End of configuration. [testng] [2024-12-13 00:34:52,154] [pool-1-thread-4] Initializing /data/big-images/8kx8k-grey.bmp: [testng] 00:34:52,155 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 00:34:52,155 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:34:52,156 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-13_00-34-52.log] [testng] 00:34:52,156 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4240aa59 - End of configuration. [testng] [2024-12-13 00:34:52,714] [pool-1-thread-3] Initializing /data/dennis/kidney_TFl_Nine.bmp: [testng] 00:34:52,714 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 00:34:52,714 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:34:52,715 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-13_00-34-52.log] [testng] 00:34:52,715 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2a094265 - End of configuration. [testng] [2024-12-13 00:34:52,871] [pool-1-thread-2] Initializing /data/curtis/image4.bmp: [testng] 00:34:52,871 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 00:34:52,871 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:34:52,872 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-13_00-34-52.log] [testng] 00:34:52,872 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4aacd6c7 - End of configuration. [testng] [2024-12-13 00:34:56,735] [pool-1-thread-9] Initializing /data/dennis/kidney_TFl_Two.bmp: [testng] [2024-12-13 00:34:56,902] [pool-1-thread-10] Initializing /data/curtis/image5.bmp: [testng] [2024-12-13 00:34:57,064] [pool-1-thread-2] Initializing /data/dennis/kidney_TFl_One.bmp: [testng] [2024-12-13 00:34:57,215] [pool-1-thread-5] Initializing /data/curtis/image1.bmp: [testng] [2024-12-13 00:34:57,376] [pool-1-thread-7] Initializing /data/dennis/kidney_TFl_Seven.bmp: [testng] [2024-12-13 00:34:57,496] [pool-1-thread-3] Initializing /data/big-images/6kx6k.bmp: [testng] [2024-12-13 00:34:57,639] [pool-1-thread-11] Initializing /data/dennis/kidney_TFl_Six.bmp: [testng] [2024-12-13 00:34:57,847] [pool-1-thread-6] Initializing /data/qa-4538/22577136_Figure 2_A_ATF6 (GST)_13572.bmp: [testng] [2024-12-13 00:34:58,152] [pool-1-thread-1] Initializing /data/brian/images/raw_a_rg.bmp: [testng] [2024-12-13 00:35:00,760] [pool-1-thread-5] Initializing /data/brian/images/23srp5dksub.bmp: [testng] [2024-12-13 00:35:00,963] [pool-1-thread-10] Initializing /data/dennis/kidney_TFl_Three.bmp: [testng] [2024-12-13 00:35:01,139] [pool-1-thread-9] Initializing /data/curtis/image3.bmp: [testng] [2024-12-13 00:35:01,300] [pool-1-thread-2] Initializing /data/ticket-12971/foo.bmp: [testng] [2024-12-13 00:35:01,529] [pool-1-thread-11] Initializing /data/dennis/kidney_TFl_Five.bmp: [testng] [2024-12-13 00:35:01,687] [pool-1-thread-7] Initializing /data/brian/images/raw_a.bmp: [testng] [2024-12-13 00:35:02,175] [pool-1-thread-8] Initializing /data/dennis/kidney_TFl_Four.bmp: [testng] [2024-12-13 00:35:03,585] [pool-1-thread-1] Initializing /data/big-images/8kx8k.bmp: [testng] [2024-12-13 00:35:04,232] [pool-1-thread-6] Initializing /data/frank/cell_mask_error.bmp: [testng] [2024-12-13 00:35:05,574] [pool-1-thread-2] 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: 45 seconds Finished: SUCCESS