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Started by upstream project "BIOFORMATS-test-repo" build number 281 originally caused by: Started by upstream project "Trigger" build number 301 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/jenkins3117187064719656777.sh + '[' bmp = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_44298_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] 00:29:35,578 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 00:29:35,580 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 00:29:35,580 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:29:35,581 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:29:35,581 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 00:29:35,581 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 00:29:35,582 |-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] 00:29:35,582 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:29:35,582 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:29:35,583 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 00:29:35,583 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 00:29:35,583 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 00:29:35,832 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 00:29:35,832 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 00:29:35,866 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 00:29:35,866 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 00:29:35,875 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 00:29:35,875 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 00:29:35,875 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 00:29:35,876 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 00:29:35,876 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 00:29:35,877 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 00:29:35,877 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 295 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-12-06 00:29:35,887] [main] java.version = 1.8.0_342 [testng] 00:29:35,891 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 00:29:35,891 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:35,938 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-06_00-29-35.log] [testng] 00:29:35,940 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2024-12-06 00:29:35,942] [main] testng.directory = /data [testng] [2024-12-06 00:29:35,942] [main] testng.configDirectory = /config [testng] [2024-12-06 00:29:35,954] [main] testng.multiplier = 1.0 [testng] [2024-12-06 00:29:35,955] [main] testng.in-memory = false [testng] [2024-12-06 00:29:35,955] [main] testng.allow-missing = false [testng] [2024-12-06 00:29:35,955] [main] user.language = en [testng] [2024-12-06 00:29:35,955] [main] user.country = ${user.country} [testng] [2024-12-06 00:29:35,955] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-12-06 00:29:36,988] [main] ---------------------------------------- [testng] [2024-12-06 00:29:36,988] [main] Total files: 31 [testng] [2024-12-06 00:29:36,988] [main] Scan time: 1.033 s (33 ms/file) [testng] [2024-12-06 00:29:36,988] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 31 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-12-06 00:29:40,918] [pool-1-thread-1] Initializing /data/bk/100427RBTLPC_FD3__A___5_T_001_ch_00_image_00025_Z_001.bmp: [testng] 00:29:40,918 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 00:29:40,918 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:40,919 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-06_00-29-40.log] [testng] 00:29:40,920 |-INFO in ch.qos.logback.core.sift.SiftProcessor@a16c8d8 - End of configuration. [testng] [2024-12-06 00:29:41,041] [pool-1-thread-12] Initializing /data/brian/images/raw_a_rg.tiff: [testng] 00:29:41,041 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 00:29:41,041 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:41,042 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-06_00-29-41.log] [testng] 00:29:41,043 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4b3c6e89 - End of configuration. [testng] [2024-12-06 00:29:41,708] [pool-1-thread-11] Initializing /data/dennis/kidney_TFl_Eight.bmp: [testng] 00:29:41,708 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 00:29:41,708 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:41,709 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-06_00-29-41.log] [testng] 00:29:41,709 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6015eb94 - End of configuration. [testng] [2024-12-06 00:29:41,766] [pool-1-thread-10] Initializing /data/stephane/holo0908.bmp: [testng] 00:29:41,766 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 00:29:41,766 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:41,767 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-06_00-29-41.log] [testng] 00:29:41,767 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37f3aef6 - End of configuration. [testng] [2024-12-06 00:29:41,828] [pool-1-thread-9] Initializing /data/brian/images/kidney_TFl_1_greyscale.bmp: [testng] 00:29:41,828 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 00:29:41,828 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:41,829 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-06_00-29-41.log] [testng] 00:29:41,829 |-INFO in ch.qos.logback.core.sift.SiftProcessor@620759aa - End of configuration. [testng] [2024-12-06 00:29:41,964] [pool-1-thread-8] Initializing /data/big-images/6kx6k-grey.bmp: [testng] 00:29:41,964 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 00:29:41,964 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:41,965 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-06_00-29-41.log] [testng] 00:29:41,965 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2a094265 - End of configuration. [testng] [2024-12-06 00:29:42,030] [pool-1-thread-7] Initializing /data/brian/images/kidney_TFl_1.bmp: [testng] 00:29:42,030 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 00:29:42,030 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:42,031 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-06_00-29-42.log] [testng] 00:29:42,031 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3c4bd7f4 - End of configuration. [testng] [2024-12-06 00:29:42,098] [pool-1-thread-6] Initializing /data/bk/ch_00.bmp: [testng] 00:29:42,099 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 00:29:42,099 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:42,099 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-06_00-29-42.log] [testng] 00:29:42,100 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4aacd6c7 - End of configuration. [testng] [2024-12-06 00:29:42,174] [pool-1-thread-5] Initializing /data/curtis/image2.bmp: [testng] 00:29:42,174 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 00:29:42,174 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:42,175 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-06_00-29-42.log] [testng] 00:29:42,175 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2f962faf - End of configuration. [testng] [2024-12-06 00:29:42,239] [pool-1-thread-4] Initializing /data/big-images/8kx8k-grey.bmp: [testng] 00:29:42,239 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 00:29:42,239 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:42,240 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-06_00-29-42.log] [testng] 00:29:42,240 |-INFO in ch.qos.logback.core.sift.SiftProcessor@585baae7 - End of configuration. [testng] [2024-12-06 00:29:42,310] [pool-1-thread-3] Initializing /data/dennis/kidney_TFl_Nine.bmp: [testng] 00:29:42,310 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 00:29:42,310 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:42,311 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-06_00-29-42.log] [testng] 00:29:42,311 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6e7d7029 - End of configuration. [testng] [2024-12-06 00:29:42,383] [pool-1-thread-2] Initializing /data/curtis/image4.bmp: [testng] 00:29:42,383 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 00:29:42,384 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:42,385 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-06_00-29-42.log] [testng] 00:29:42,385 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7ba9a2d7 - End of configuration. [testng] [2024-12-06 00:29:44,915] [pool-1-thread-5] Initializing /data/dennis/kidney_TFl_Two.bmp: [testng] [2024-12-06 00:29:44,978] [pool-1-thread-9] Initializing /data/curtis/image5.bmp: [testng] [2024-12-06 00:29:45,041] [pool-1-thread-2] Initializing /data/dennis/kidney_TFl_One.bmp: [testng] [2024-12-06 00:29:45,103] [pool-1-thread-11] Initializing /data/curtis/image1.bmp: [testng] [2024-12-06 00:29:45,228] [pool-1-thread-7] Initializing /data/dennis/kidney_TFl_Seven.bmp: [testng] [2024-12-06 00:29:45,701] [pool-1-thread-3] Initializing /data/big-images/6kx6k.bmp: [testng] [2024-12-06 00:29:46,142] [pool-1-thread-10] Initializing /data/dennis/kidney_TFl_Six.bmp: [testng] [2024-12-06 00:29:46,745] [pool-1-thread-6] Initializing /data/qa-4538/22577136_Figure 2_A_ATF6 (GST)_13572.bmp: [testng] [2024-12-06 00:29:47,518] [pool-1-thread-1] Initializing /data/brian/images/raw_a_rg.bmp: [testng] [2024-12-06 00:29:49,009] [pool-1-thread-11] Initializing /data/brian/images/23srp5dksub.bmp: [testng] [2024-12-06 00:29:49,084] [pool-1-thread-9] Initializing /data/dennis/kidney_TFl_Three.bmp: [testng] [2024-12-06 00:29:49,140] [pool-1-thread-5] Initializing /data/ticket-12971/foo.bmp: [testng] [2024-12-06 00:29:49,207] [pool-1-thread-2] Initializing /data/dennis/kidney_TFl_Five.bmp: [testng] [2024-12-06 00:29:49,270] [pool-1-thread-10] Initializing /data/brian/images/raw_a.bmp: [testng] [2024-12-06 00:29:49,358] [pool-1-thread-7] Initializing /data/curtis/image3.bmp: [testng] [2024-12-06 00:29:49,629] [pool-1-thread-1] Initializing /data/dennis/kidney_TFl_Four.bmp: [testng] [2024-12-06 00:29:50,305] [pool-1-thread-6] Initializing /data/big-images/8kx8k.bmp: [testng] [2024-12-06 00:29:50,499] [pool-1-thread-5] Initializing /data/frank/cell_mask_error.bmp: [testng] [2024-12-06 00:29:50,576] [pool-1-thread-10] 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: 35 seconds Finished: SUCCESS