Started by upstream project "BIOFORMATS-test-repo" build number 276 originally caused by: Started by upstream project "Trigger" build number 297 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/jenkins2067161649066999018.sh + '[' bmp = slidebook ']' ++ date +%u + '[' 1 -le 1 ']' + DOCKER_ARGS='-Dtestng.memory=15g -Dtestng.threadCount=12 -Duser.language=fr -Duser.country=FR' + sudo docker run --rm --name BIOFORMATS-test-folder_43476_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 -Duser.language=fr -Duser.country=FR 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] 00:30:10,321 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 00:30:10,323 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 00:30:10,323 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:30:10,324 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:30:10,325 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 00:30:10,325 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 00:30:10,325 |-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] 00:30:10,325 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:30:10,326 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:30:10,326 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 00:30:10,326 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 00:30:10,326 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 00:30:10,581 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 00:30:10,582 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 00:30:10,614 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 00:30:10,614 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 00:30:10,624 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 00:30:10,624 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 00:30:10,624 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 00:30:10,625 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 00:30:10,625 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 00:30:10,626 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 00:30:10,626 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 300 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-12-02 00:30:10,638] [main] java.version = 1.8.0_342 [testng] 00:30:10,643 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 00:30:10,643 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:10,697 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-02_00-30-10.log] [testng] 00:30:10,699 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2024-12-02 00:30:10,701] [main] testng.directory = /data [testng] [2024-12-02 00:30:10,702] [main] testng.configDirectory = /config [testng] [2024-12-02 00:30:10,716] [main] testng.multiplier = 1.0 [testng] [2024-12-02 00:30:10,716] [main] testng.in-memory = false [testng] [2024-12-02 00:30:10,717] [main] testng.allow-missing = false [testng] [2024-12-02 00:30:10,717] [main] user.language = fr [testng] [2024-12-02 00:30:10,717] [main] user.country = FR [testng] [2024-12-02 00:30:10,717] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-12-02 00:30:12,181] [main] ---------------------------------------- [testng] [2024-12-02 00:30:12,182] [main] Total files: 31 [testng] [2024-12-02 00:30:12,182] [main] Scan time: 1.464 s (47 ms/file) [testng] [2024-12-02 00:30:12,182] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 31 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-12-02 00:30:16,651] [pool-1-thread-1] Initializing /data/bk/100427RBTLPC_FD3__A___5_T_001_ch_00_image_00025_Z_001.bmp: [testng] 00:30:16,651 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 00:30:16,651 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:16,652 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-02_00-30-16.log] [testng] 00:30:16,653 |-INFO in ch.qos.logback.core.sift.SiftProcessor@58fafa44 - End of configuration. [testng] [2024-12-02 00:30:16,726] [pool-1-thread-12] Initializing /data/brian/images/raw_a_rg.tiff: [testng] 00:30:16,726 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 00:30:16,726 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:16,727 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-02_00-30-16.log] [testng] 00:30:16,727 |-INFO in ch.qos.logback.core.sift.SiftProcessor@455c0c6e - End of configuration. [testng] [2024-12-02 00:30:17,476] [pool-1-thread-11] Initializing /data/dennis/kidney_TFl_Eight.bmp: [testng] 00:30:17,477 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 00:30:17,477 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:17,478 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-02_00-30-17.log] [testng] 00:30:17,478 |-INFO in ch.qos.logback.core.sift.SiftProcessor@52a7d4da - End of configuration. [testng] [2024-12-02 00:30:17,543] [pool-1-thread-10] Initializing /data/stephane/holo0908.bmp: [testng] 00:30:17,543 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 00:30:17,543 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:17,544 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-02_00-30-17.log] [testng] 00:30:17,544 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6e1c9a9f - End of configuration. [testng] [2024-12-02 00:30:17,602] [pool-1-thread-9] Initializing /data/brian/images/kidney_TFl_1_greyscale.bmp: [testng] 00:30:17,602 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 00:30:17,602 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:17,603 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-02_00-30-17.log] [testng] 00:30:17,603 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1b6d84ce - End of configuration. [testng] [2024-12-02 00:30:17,658] [pool-1-thread-8] Initializing /data/big-images/6kx6k-grey.bmp: [testng] 00:30:17,658 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 00:30:17,658 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:17,659 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-02_00-30-17.log] [testng] 00:30:17,659 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2f653543 - End of configuration. [testng] [2024-12-02 00:30:17,725] [pool-1-thread-7] Initializing /data/brian/images/kidney_TFl_1.bmp: [testng] 00:30:17,725 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 00:30:17,725 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:17,726 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-02_00-30-17.log] [testng] 00:30:17,726 |-INFO in ch.qos.logback.core.sift.SiftProcessor@18589129 - End of configuration. [testng] [2024-12-02 00:30:17,792] [pool-1-thread-6] Initializing /data/bk/ch_00.bmp: [testng] 00:30:17,792 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 00:30:17,792 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:17,793 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-02_00-30-17.log] [testng] 00:30:17,793 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2e44afd1 - End of configuration. [testng] [2024-12-02 00:30:17,864] [pool-1-thread-5] Initializing /data/curtis/image2.bmp: [testng] 00:30:17,864 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 00:30:17,864 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:17,865 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-02_00-30-17.log] [testng] 00:30:17,865 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6beabbe8 - End of configuration. [testng] [2024-12-02 00:30:17,935] [pool-1-thread-4] Initializing /data/big-images/8kx8k-grey.bmp: [testng] 00:30:17,935 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 00:30:17,935 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:17,936 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-02_00-30-17.log] [testng] 00:30:17,936 |-INFO in ch.qos.logback.core.sift.SiftProcessor@71cfd197 - End of configuration. [testng] [2024-12-02 00:30:18,016] [pool-1-thread-3] Initializing /data/dennis/kidney_TFl_Nine.bmp: [testng] 00:30:18,016 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 00:30:18,016 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:18,017 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-02_00-30-18.log] [testng] 00:30:18,017 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4cad303 - End of configuration. [testng] [2024-12-02 00:30:18,094] [pool-1-thread-2] Initializing /data/curtis/image4.bmp: [testng] 00:30:18,094 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 00:30:18,095 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:18,095 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-02_00-30-18.log] [testng] 00:30:18,095 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7e2cc3a3 - End of configuration. [testng] [2024-12-02 00:30:20,478] [pool-1-thread-9] Initializing /data/dennis/kidney_TFl_Two.bmp: [testng] [2024-12-02 00:30:20,554] [pool-1-thread-11] Initializing /data/curtis/image5.bmp: [testng] [2024-12-02 00:30:20,626] [pool-1-thread-7] Initializing /data/dennis/kidney_TFl_One.bmp: [testng] [2024-12-02 00:30:20,690] [pool-1-thread-3] Initializing /data/curtis/image1.bmp: [testng] [2024-12-02 00:30:20,749] [pool-1-thread-5] Initializing /data/dennis/kidney_TFl_Seven.bmp: [testng] [2024-12-02 00:30:20,809] [pool-1-thread-2] Initializing /data/big-images/6kx6k.bmp: [testng] [2024-12-02 00:30:20,870] [pool-1-thread-10] Initializing /data/dennis/kidney_TFl_Six.bmp: [testng] [2024-12-02 00:30:21,076] [pool-1-thread-6] Initializing /data/qa-4538/22577136_Figure 2_A_ATF6 (GST)_13572.bmp: [testng] [2024-12-02 00:30:21,191] [pool-1-thread-1] Initializing /data/brian/images/raw_a_rg.bmp: [testng] [2024-12-02 00:30:22,442] [pool-1-thread-11] Initializing /data/brian/images/23srp5dksub.bmp: [testng] [2024-12-02 00:30:22,528] [pool-1-thread-3] Initializing /data/dennis/kidney_TFl_Three.bmp: [testng] [2024-12-02 00:30:22,603] [pool-1-thread-7] Initializing /data/dennis/kidney_TFl_Five.bmp: [testng] [2024-12-02 00:30:22,683] [pool-1-thread-10] Initializing /data/brian/images/raw_a.bmp: [testng] [2024-12-02 00:30:22,778] [pool-1-thread-9] Initializing /data/ticket-12971/foo.bmp: [testng] [2024-12-02 00:30:23,130] [pool-1-thread-5] Initializing /data/curtis/image3.bmp: [testng] [2024-12-02 00:30:23,508] [pool-1-thread-1] Initializing /data/dennis/kidney_TFl_Four.bmp: [testng] [2024-12-02 00:30:24,113] [pool-1-thread-6] Initializing /data/big-images/8kx8k.bmp: [testng] [2024-12-02 00:30:24,395] [pool-1-thread-10] Initializing /data/frank/cell_mask_error.bmp: [testng] [2024-12-02 00:30:24,490] [pool-1-thread-7] 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: 34 seconds Finished: SUCCESS