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Started by upstream project "BIOFORMATS-test-repo" build number 307 originally caused by: Started by upstream project "Trigger" build number 329 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@2 [BIOFORMATS-test-folder@2] $ /bin/bash -xe /tmp/jenkins12747267960166410935.sh + '[' bmp = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_48578_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] 00:29:58,431 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 00:29:58,432 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 00:29:58,432 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:29:58,433 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:29:58,434 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 00:29:58,434 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 00:29:58,434 |-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] 00:29:58,434 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:29:58,434 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:29:58,435 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 00:29:58,435 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 00:29:58,435 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 00:29:58,652 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 00:29:58,653 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 00:29:58,679 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 00:29:58,679 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 00:29:58,687 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 00:29:58,687 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 00:29:58,687 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 00:29:58,687 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 00:29:58,687 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 00:29:58,688 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 00:29:58,688 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 254 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-01-03 00:29:58,698] [main] java.version = 1.8.0_342 [testng] 00:29:58,701 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 00:29:58,701 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:58,745 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-01-03_00-29-58.log] [testng] 00:29:58,747 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2025-01-03 00:29:58,748] [main] testng.directory = /data [testng] [2025-01-03 00:29:58,749] [main] testng.configDirectory = /config [testng] [2025-01-03 00:29:58,761] [main] testng.multiplier = 1.0 [testng] [2025-01-03 00:29:58,761] [main] testng.in-memory = false [testng] [2025-01-03 00:29:58,761] [main] testng.allow-missing = false [testng] [2025-01-03 00:29:58,761] [main] user.language = en [testng] [2025-01-03 00:29:58,761] [main] user.country = ${user.country} [testng] [2025-01-03 00:29:58,761] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2025-01-03 00:29:59,903] [main] ---------------------------------------- [testng] [2025-01-03 00:29:59,903] [main] Total files: 31 [testng] [2025-01-03 00:29:59,903] [main] Scan time: 1.142 s (36 ms/file) [testng] [2025-01-03 00:29:59,903] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 31 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-01-03 00:30:04,529] [pool-1-thread-1] Initializing /data/big-images/8kx8k.bmp: [testng] 00:30:04,530 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 00:30:04,530 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:04,531 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-01-03_00-30-04.log] [testng] 00:30:04,531 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2f876b6a - End of configuration. [testng] [2025-01-03 00:30:04,602] [pool-1-thread-12] Initializing /data/brian/images/raw_a_rg.bmp: [testng] 00:30:04,602 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 00:30:04,602 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:04,603 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-01-03_00-30-04.log] [testng] 00:30:04,603 |-INFO in ch.qos.logback.core.sift.SiftProcessor@b72e685 - End of configuration. [testng] [2025-01-03 00:30:04,664] [pool-1-thread-11] Initializing /data/curtis/image1.bmp: [testng] 00:30:04,664 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 00:30:04,664 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:04,665 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-01-03_00-30-04.log] [testng] 00:30:04,665 |-INFO in ch.qos.logback.core.sift.SiftProcessor@67c27d5 - End of configuration. [testng] [2025-01-03 00:30:04,734] [pool-1-thread-10] Initializing /data/bk/ch_00.bmp: [testng] 00:30:04,734 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 00:30:04,734 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:04,735 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-01-03_00-30-04.log] [testng] 00:30:04,735 |-INFO in ch.qos.logback.core.sift.SiftProcessor@57598c95 - End of configuration. [testng] [2025-01-03 00:30:04,807] [pool-1-thread-9] Initializing /data/dennis/kidney_TFl_Seven.bmp: [testng] 00:30:04,807 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 00:30:04,807 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:04,808 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-01-03_00-30-04.log] [testng] 00:30:04,808 |-INFO in ch.qos.logback.core.sift.SiftProcessor@55b7c7d - End of configuration. [testng] [2025-01-03 00:30:04,882] [pool-1-thread-8] Initializing /data/curtis/image4.bmp: [testng] 00:30:04,882 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 00:30:04,882 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:04,883 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-01-03_00-30-04.log] [testng] 00:30:04,883 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4bfc344a - End of configuration. [testng] [2025-01-03 00:30:04,954] [pool-1-thread-7] Initializing /data/stephane/holo0908.bmp: [testng] 00:30:04,954 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 00:30:04,954 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:04,955 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-01-03_00-30-04.log] [testng] 00:30:04,956 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1b6d84ce - End of configuration. [testng] [2025-01-03 00:30:05,099] [pool-1-thread-6] Initializing /data/frank/cell_mask_error.bmp: [testng] 00:30:05,099 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 00:30:05,099 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:05,100 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-01-03_00-30-05.log] [testng] 00:30:05,100 |-INFO in ch.qos.logback.core.sift.SiftProcessor@53cab8a9 - End of configuration. [testng] [2025-01-03 00:30:05,175] [pool-1-thread-5] Initializing /data/big-images/6kx6k.bmp: [testng] 00:30:05,176 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 00:30:05,176 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:05,177 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-01-03_00-30-05.log] [testng] 00:30:05,178 |-INFO in ch.qos.logback.core.sift.SiftProcessor@49f82dc1 - End of configuration. [testng] [2025-01-03 00:30:05,243] [pool-1-thread-4] Initializing /data/brian/images/kidney_TFl_1.bmp: [testng] 00:30:05,243 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 00:30:05,243 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:05,244 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-01-03_00-30-05.log] [testng] 00:30:05,244 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2a4c1a43 - End of configuration. [testng] [2025-01-03 00:30:05,316] [pool-1-thread-3] Initializing /data/dennis/kidney_TFl_One.bmp: [testng] 00:30:05,317 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 00:30:05,317 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:05,317 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-01-03_00-30-05.log] [testng] 00:30:05,318 |-INFO in ch.qos.logback.core.sift.SiftProcessor@72587cb4 - End of configuration. [testng] [2025-01-03 00:30:05,406] [pool-1-thread-2] Initializing /data/dennis/kidney_TFl_Five.bmp: [testng] 00:30:05,407 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 00:30:05,407 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:05,407 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-01-03_00-30-05.log] [testng] 00:30:05,408 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13d96353 - End of configuration. [testng] [2025-01-03 00:30:08,099] [pool-1-thread-11] Initializing /data/brian/images/raw_a.bmp: [testng] [2025-01-03 00:30:08,168] [pool-1-thread-8] Initializing /data/dennis/kidney_TFl_Eight.bmp: [testng] [2025-01-03 00:30:08,229] [pool-1-thread-12] Initializing /data/dennis/kidney_TFl_Four.bmp: [testng] [2025-01-03 00:30:08,298] [pool-1-thread-3] Initializing /data/curtis/image3.bmp: [testng] [2025-01-03 00:30:08,395] [pool-1-thread-4] Initializing /data/bk/100427RBTLPC_FD3__A___5_T_001_ch_00_image_00025_Z_001.bmp: [testng] [2025-01-03 00:30:08,464] [pool-1-thread-2] Initializing /data/ticket-12971/foo.bmp: [testng] [2025-01-03 00:30:08,535] [pool-1-thread-6] Initializing /data/brian/images/kidney_TFl_1_greyscale.bmp: [testng] [2025-01-03 00:30:08,596] [pool-1-thread-9] Initializing /data/big-images/6kx6k-grey.bmp: [testng] [2025-01-03 00:30:08,704] [pool-1-thread-7] Initializing /data/brian/images/raw_a_rg.tiff: [testng] [2025-01-03 00:30:10,109] [pool-1-thread-10] Initializing /data/dennis/kidney_TFl_Nine.bmp: [testng] [2025-01-03 00:30:10,554] [pool-1-thread-2] Initializing /data/brian/images/23srp5dksub.bmp: [testng] [2025-01-03 00:30:10,642] [pool-1-thread-3] Initializing /data/curtis/image5.bmp: [testng] [2025-01-03 00:30:10,722] [pool-1-thread-8] Initializing /data/dennis/kidney_TFl_Two.bmp: [testng] [2025-01-03 00:30:10,804] [pool-1-thread-6] Initializing /data/brian/images/DMSOHigh_001.bmp: [testng] [2025-01-03 00:30:10,883] [pool-1-thread-11] Initializing /data/big-images/8kx8k-grey.bmp: [testng] [2025-01-03 00:30:10,986] [pool-1-thread-12] Initializing /data/dennis/kidney_TFl_Six.bmp: [testng] [2025-01-03 00:30:11,739] [pool-1-thread-10] Initializing /data/dennis/kidney_TFl_Three.bmp: [testng] [2025-01-03 00:30:12,241] [pool-1-thread-4] Initializing /data/qa-4538/22577136_Figure 2_A_ATF6 (GST)_13572.bmp: [testng] [2025-01-03 00:30:12,569] [pool-1-thread-3] Initializing /data/curtis/image2.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