Started by upstream project "BIOFORMATS-test-repo" build number 130 originally caused by: Started by upstream project "Trigger" build number 147 originally caused by: Started by user devspace 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/jenkins3682149339997792801.sh + '[' bmp = slidebook ']' ++ date +%u + '[' 2 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_20334_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 [javac] warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] 1 warning test-automated: [testng] WARNING: An illegal reflective access operation has occurred [testng] WARNING: Illegal reflective access by org.kohsuke.file_leak_detector.Listener (file:/home/build/.m2/repository/org/kohsuke/file-leak-detector/1.18/file-leak-detector-1.18-jar-with-dependencies.jar) to field java.net.SocketImpl.socket [testng] WARNING: Please consider reporting this to the maintainers of org.kohsuke.file_leak_detector.Listener [testng] WARNING: Use --illegal-access=warn to enable warnings of further illegal reflective access operations [testng] WARNING: All illegal access operations will be denied in a future release [testng] File leak detector installed [testng] 11:15:03,395 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 11:15:03,398 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - No custom configurators were discovered as a service. [testng] 11:15:03,398 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 11:15:03,400 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 11:15:03,400 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 11:15:03,401 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 11:15:03,401 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 11:15:03,401 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 11:15:03,402 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 11:15:03,404 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 11:15:03,406 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 11:15:03,406 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 11:15:03,607 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 11:15:03,607 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 11:15:03,631 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 11:15:03,631 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 11:15:03,637 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 11:15:03,638 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 11:15:03,638 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 11:15:03,639 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 11:15:03,639 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2794eab6 - End of configuration. [testng] 11:15:03,640 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6c1a5b54 - Registering current configuration as safe fallback point [testng] 11:15:03,640 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 238 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-07-23 11:15:03,651] [main] java.version = 11.0.16 [testng] 11:15:03,656 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 11:15:03,656 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:15:03,704 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-07-23_11-15-03.log] [testng] 11:15:03,706 |-INFO in ch.qos.logback.core.sift.SiftProcessor@642a7222 - End of configuration. [testng] [2024-07-23 11:15:03,710] [main] testng.directory = /data [testng] [2024-07-23 11:15:03,710] [main] testng.configDirectory = /config [testng] [2024-07-23 11:15:03,724] [main] testng.multiplier = 1.0 [testng] [2024-07-23 11:15:03,726] [main] testng.in-memory = false [testng] [2024-07-23 11:15:03,726] [main] testng.allow-missing = false [testng] [2024-07-23 11:15:03,726] [main] user.language = en [testng] [2024-07-23 11:15:03,726] [main] user.country = ${user.country} [testng] [2024-07-23 11:15:03,727] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-07-23 11:15:04,196] [main] ---------------------------------------- [testng] [2024-07-23 11:15:04,196] [main] Total files: 31 [testng] [2024-07-23 11:15:04,197] [main] Scan time: 0.469 s (15 ms/file) [testng] [2024-07-23 11:15:04,197] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 31 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-07-23 11:15:05,627] [pool-1-thread-1] Initializing /data/curtis/image2.bmp: [testng] 11:15:05,629 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 11:15:05,629 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:15:05,632 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-07-23_11-15-05.log] [testng] 11:15:05,633 |-INFO in ch.qos.logback.core.sift.SiftProcessor@51aa0006 - End of configuration. [testng] [2024-07-23 11:15:05,649] [pool-1-thread-12] Initializing /data/brian/images/DMSOHigh_001.bmp: [testng] 11:15:05,649 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 11:15:05,649 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:15:05,650 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-07-23_11-15-05.log] [testng] 11:15:05,651 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2ad52f9b - End of configuration. [testng] [2024-07-23 11:15:05,660] [pool-1-thread-11] Initializing /data/bk/ch_00.bmp: [testng] 11:15:05,661 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 11:15:05,661 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:15:05,662 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-07-23_11-15-05.log] [testng] 11:15:05,662 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5d0eb103 - End of configuration. [testng] [2024-07-23 11:15:05,672] [pool-1-thread-10] Initializing /data/ticket-12971/foo.bmp: [testng] 11:15:05,672 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 11:15:05,672 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:15:05,673 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-07-23_11-15-05.log] [testng] 11:15:05,673 |-INFO in ch.qos.logback.core.sift.SiftProcessor@562447f0 - End of configuration. [testng] [2024-07-23 11:15:05,680] [pool-1-thread-9] Initializing /data/dennis/kidney_TFl_Three.bmp: [testng] 11:15:05,680 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 11:15:05,680 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:15:05,681 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-07-23_11-15-05.log] [testng] 11:15:05,682 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5b2cb0c6 - End of configuration. [testng] [2024-07-23 11:15:05,688] [pool-1-thread-8] Initializing /data/big-images/6kx6k.bmp: [testng] 11:15:05,689 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 11:15:05,689 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:15:05,689 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-07-23_11-15-05.log] [testng] 11:15:05,690 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6e1d3580 - End of configuration. [testng] [2024-07-23 11:15:05,721] [pool-1-thread-7] Initializing /data/curtis/image1.bmp: [testng] 11:15:05,721 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 11:15:05,721 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:15:05,722 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-07-23_11-15-05.log] [testng] 11:15:05,722 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4710547f - End of configuration. [testng] [2024-07-23 11:15:05,727] [pool-1-thread-6] Initializing /data/brian/images/kidney_TFl_1.bmp: [testng] 11:15:05,727 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 11:15:05,727 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:15:05,728 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-07-23_11-15-05.log] [testng] 11:15:05,728 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4ccef99 - End of configuration. [testng] [2024-07-23 11:15:05,737] [pool-1-thread-5] Initializing /data/dennis/kidney_TFl_Two.bmp: [testng] 11:15:05,737 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 11:15:05,737 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:15:05,738 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-07-23_11-15-05.log] [testng] 11:15:05,738 |-INFO in ch.qos.logback.core.sift.SiftProcessor@61635f85 - End of configuration. [testng] [2024-07-23 11:15:05,746] [pool-1-thread-4] Initializing /data/curtis/image3.bmp: [testng] 11:15:05,746 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 11:15:05,746 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:15:05,747 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-07-23_11-15-05.log] [testng] 11:15:05,747 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6633f71f - End of configuration. [testng] [2024-07-23 11:15:05,753] [pool-1-thread-3] Initializing /data/brian/images/raw_a_rg.tiff: [testng] 11:15:05,753 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 11:15:05,753 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:15:05,753 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-07-23_11-15-05.log] [testng] 11:15:05,754 |-INFO in ch.qos.logback.core.sift.SiftProcessor@421ed8ac - End of configuration. [testng] [2024-07-23 11:15:05,800] [pool-1-thread-2] Initializing /data/dennis/kidney_TFl_Four.bmp: [testng] 11:15:05,800 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 11:15:05,800 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:15:05,801 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-07-23_11-15-05.log] [testng] 11:15:05,802 |-INFO in ch.qos.logback.core.sift.SiftProcessor@377b05 - End of configuration. [testng] [2024-07-23 11:15:07,246] [pool-1-thread-10] Initializing /data/dennis/kidney_TFl_Seven.bmp: [testng] [2024-07-23 11:15:07,251] [pool-1-thread-1] Initializing /data/big-images/8kx8k-grey.bmp: [testng] [2024-07-23 11:15:07,259] [pool-1-thread-4] Initializing /data/brian/images/raw_a_rg.bmp: [testng] [2024-07-23 11:15:07,266] [pool-1-thread-7] Initializing /data/dennis/kidney_TFl_One.bmp: [testng] [2024-07-23 11:15:07,273] [pool-1-thread-9] Initializing /data/curtis/image5.bmp: [testng] [2024-07-23 11:15:07,278] [pool-1-thread-6] Initializing /data/dennis/kidney_TFl_Five.bmp: [testng] [2024-07-23 11:15:07,285] [pool-1-thread-2] Initializing /data/qa-4538/22577136_Figure 2_A_ATF6 (GST)_13572.bmp: [testng] [2024-07-23 11:15:07,295] [pool-1-thread-5] Initializing /data/dennis/kidney_TFl_Six.bmp: [testng] [2024-07-23 11:15:07,301] [pool-1-thread-12] Initializing /data/stephane/holo0908.bmp: [testng] [2024-07-23 11:15:07,308] [pool-1-thread-3] Initializing /data/frank/cell_mask_error.bmp: [testng] [2024-07-23 11:15:07,573] [pool-1-thread-11] Initializing /data/dennis/kidney_TFl_Nine.bmp: [testng] [2024-07-23 11:15:07,578] [pool-1-thread-9] Initializing /data/bk/100427RBTLPC_FD3__A___5_T_001_ch_00_image_00025_Z_001.bmp: [testng] [2024-07-23 11:15:07,666] [pool-1-thread-4] Initializing /data/brian/images/kidney_TFl_1_greyscale.bmp: [testng] [2024-07-23 11:15:07,743] [pool-1-thread-7] Initializing /data/curtis/image4.bmp: [testng] [2024-07-23 11:15:07,781] [pool-1-thread-6] Initializing /data/big-images/8kx8k.bmp: [testng] [2024-07-23 11:15:07,788] [pool-1-thread-10] Initializing /data/brian/images/raw_a.bmp: [testng] [2024-07-23 11:15:07,849] [pool-1-thread-5] Initializing /data/big-images/6kx6k-grey.bmp: [testng] [2024-07-23 11:15:07,856] [pool-1-thread-3] Initializing /data/brian/images/23srp5dksub.bmp: [testng] [2024-07-23 11:15:07,909] [pool-1-thread-4] Initializing /data/dennis/kidney_TFl_Eight.bmp: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1643, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 33 seconds Finished: SUCCESS