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Started by upstream project "BIOFORMATS-test-repo" build number 181 originally caused by: Started by upstream project "Trigger" build number 202 originally caused by: Started by user devspace 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/jenkins12578163533848715646.sh + '[' bmp = slidebook ']' ++ date +%u + '[' 2 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_28541_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] 06:56:59,109 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 06:56:59,111 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - No custom configurators were discovered as a service. [testng] 06:56:59,111 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 06:56:59,112 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 06:56:59,113 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 06:56:59,114 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 06:56:59,114 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 2 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 06:56:59,114 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 06:56:59,115 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 06:56:59,115 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 06:56:59,116 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 06:56:59,116 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 06:56:59,313 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 06:56:59,313 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 06:56:59,349 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 06:56:59,349 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 06:56:59,356 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 06:56:59,356 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 06:56:59,356 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 06:56:59,357 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 06:56:59,357 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2794eab6 - End of configuration. [testng] 06:56:59,358 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6c1a5b54 - Registering current configuration as safe fallback point [testng] 06:56:59,358 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 243 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-09-10 06:56:59,367] [main] java.version = 11.0.16 [testng] 06:56:59,371 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 06:56:59,371 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:56:59,416 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-09-10_06-56-59.log] [testng] 06:56:59,418 |-INFO in ch.qos.logback.core.sift.SiftProcessor@642a7222 - End of configuration. [testng] [2024-09-10 06:56:59,421] [main] testng.directory = /data [testng] [2024-09-10 06:56:59,421] [main] testng.configDirectory = /config [testng] [2024-09-10 06:56:59,433] [main] testng.multiplier = 1.0 [testng] [2024-09-10 06:56:59,435] [main] testng.in-memory = false [testng] [2024-09-10 06:56:59,435] [main] testng.allow-missing = false [testng] [2024-09-10 06:56:59,435] [main] user.language = en [testng] [2024-09-10 06:56:59,435] [main] user.country = ${user.country} [testng] [2024-09-10 06:56:59,435] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-09-10 06:57:00,419] [main] ---------------------------------------- [testng] [2024-09-10 06:57:00,420] [main] Total files: 31 [testng] [2024-09-10 06:57:00,420] [main] Scan time: 0.984 s (31 ms/file) [testng] [2024-09-10 06:57:00,420] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 31 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-09-10 06:57:01,948] [pool-1-thread-1] Initializing /data/bk/ch_00.bmp: [testng] 06:57:01,949 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 06:57:01,950 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:57:01,952 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-09-10_06-57-01.log] [testng] 06:57:01,952 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2b81e2a1 - End of configuration. [testng] [2024-09-10 06:57:01,971] [pool-1-thread-12] Initializing /data/curtis/image2.bmp: [testng] 06:57:01,971 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 06:57:01,972 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:57:01,973 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-09-10_06-57-01.log] [testng] 06:57:01,973 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4453eb07 - End of configuration. [testng] [2024-09-10 06:57:01,982] [pool-1-thread-11] Initializing /data/ticket-12971/foo.bmp: [testng] 06:57:01,983 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 06:57:01,983 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:57:01,983 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-09-10_06-57-01.log] [testng] 06:57:01,984 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4fed7aa2 - End of configuration. [testng] [2024-09-10 06:57:01,995] [pool-1-thread-10] Initializing /data/dennis/kidney_TFl_Seven.bmp: [testng] 06:57:01,995 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 06:57:01,995 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:57:01,996 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-09-10_06-57-01.log] [testng] 06:57:01,996 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3f9a78e3 - End of configuration. [testng] [2024-09-10 06:57:02,011] [pool-1-thread-9] Initializing /data/dennis/kidney_TFl_Three.bmp: [testng] 06:57:02,012 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 06:57:02,012 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:57:02,012 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-09-10_06-57-02.log] [testng] 06:57:02,013 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21026e90 - End of configuration. [testng] [2024-09-10 06:57:02,028] [pool-1-thread-8] Initializing /data/dennis/kidney_TFl_Nine.bmp: [testng] 06:57:02,028 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 06:57:02,028 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:57:02,029 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-09-10_06-57-02.log] [testng] 06:57:02,029 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3e3ada9 - End of configuration. [testng] [2024-09-10 06:57:02,045] [pool-1-thread-7] Initializing /data/curtis/image4.bmp: [testng] 06:57:02,045 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 06:57:02,045 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:57:02,046 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-09-10_06-57-02.log] [testng] 06:57:02,047 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3a621434 - End of configuration. [testng] [2024-09-10 06:57:02,058] [pool-1-thread-6] Initializing /data/bk/100427RBTLPC_FD3__A___5_T_001_ch_00_image_00025_Z_001.bmp: [testng] 06:57:02,058 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 06:57:02,058 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:57:02,059 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-09-10_06-57-02.log] [testng] 06:57:02,060 |-INFO in ch.qos.logback.core.sift.SiftProcessor@64a58df5 - End of configuration. [testng] [2024-09-10 06:57:02,076] [pool-1-thread-5] Initializing /data/curtis/image5.bmp: [testng] 06:57:02,076 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 06:57:02,076 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:57:02,076 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-09-10_06-57-02.log] [testng] 06:57:02,077 |-INFO in ch.qos.logback.core.sift.SiftProcessor@40d48e1e - End of configuration. [testng] [2024-09-10 06:57:02,087] [pool-1-thread-4] Initializing /data/brian/images/23srp5dksub.bmp: [testng] 06:57:02,087 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 06:57:02,087 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:57:02,088 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-09-10_06-57-02.log] [testng] 06:57:02,088 |-INFO in ch.qos.logback.core.sift.SiftProcessor@76a9acaa - End of configuration. [testng] [2024-09-10 06:57:02,104] [pool-1-thread-3] Initializing /data/big-images/8kx8k.bmp: [testng] 06:57:02,104 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 06:57:02,104 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:57:02,105 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-09-10_06-57-02.log] [testng] 06:57:02,105 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1dffaa71 - End of configuration. [testng] [2024-09-10 06:57:02,182] [pool-1-thread-2] Initializing /data/brian/images/raw_a_rg.bmp: [testng] 06:57:02,183 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 06:57:02,183 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:57:02,183 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-09-10_06-57-02.log] [testng] 06:57:02,184 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1e6a99be - End of configuration. [testng] [2024-09-10 06:57:03,845] [pool-1-thread-11] Initializing /data/dennis/kidney_TFl_Eight.bmp: [testng] [2024-09-10 06:57:03,852] [pool-1-thread-5] Initializing /data/curtis/image1.bmp: [testng] [2024-09-10 06:57:03,866] [pool-1-thread-7] Initializing /data/brian/images/kidney_TFl_1.bmp: [testng] [2024-09-10 06:57:03,872] [pool-1-thread-12] Initializing /data/brian/images/raw_a.bmp: [testng] [2024-09-10 06:57:03,880] [pool-1-thread-2] Initializing /data/dennis/kidney_TFl_Five.bmp: [testng] [2024-09-10 06:57:03,888] [pool-1-thread-9] Initializing /data/curtis/image3.bmp: [testng] [2024-09-10 06:57:03,921] [pool-1-thread-8] Initializing /data/frank/cell_mask_error.bmp: [testng] [2024-09-10 06:57:03,927] [pool-1-thread-10] Initializing /data/dennis/kidney_TFl_Six.bmp: [testng] [2024-09-10 06:57:03,934] [pool-1-thread-4] Initializing /data/dennis/kidney_TFl_Four.bmp: [testng] [2024-09-10 06:57:04,415] [pool-1-thread-9] Initializing /data/big-images/8kx8k-grey.bmp: [testng] [2024-09-10 06:57:04,434] [pool-1-thread-5] Initializing /data/brian/images/raw_a_rg.tiff: [testng] [2024-09-10 06:57:04,511] [pool-1-thread-6] Initializing /data/qa-4538/22577136_Figure 2_A_ATF6 (GST)_13572.bmp: [testng] [2024-09-10 06:57:04,693] [pool-1-thread-1] Initializing /data/big-images/6kx6k-grey.bmp: [testng] [2024-09-10 06:57:04,867] [pool-1-thread-12] Initializing /data/stephane/holo0908.bmp: [testng] [2024-09-10 06:57:04,877] [pool-1-thread-4] Initializing /data/brian/images/DMSOHigh_001.bmp: [testng] [2024-09-10 06:57:04,918] [pool-1-thread-11] Initializing /data/dennis/kidney_TFl_One.bmp: [testng] [2024-09-10 06:57:05,015] [pool-1-thread-7] Initializing /data/big-images/6kx6k.bmp: [testng] [2024-09-10 06:57:05,028] [pool-1-thread-2] Initializing /data/brian/images/kidney_TFl_1_greyscale.bmp: [testng] [2024-09-10 06:57:05,036] [pool-1-thread-10] Initializing /data/dennis/kidney_TFl_Two.bmp: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1643, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 37 seconds Finished: SUCCESS