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Started by upstream project "BIOFORMATS-test-repo" build number 380 originally caused by: Started by upstream project "Trigger" build number 402 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@6 [BIOFORMATS-test-folder@6] $ /bin/bash -xe /tmp/jenkins12747846155312452964.sh + '[' bmp = slidebook ']' ++ date +%u + '[' 7 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_60087_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] Could not load field socket from SocketImpl: java.lang.NoSuchFieldException: socket [testng] Could not load field serverSocket from SocketImpl: java.lang.NoSuchFieldException: serverSocket [testng] File leak detector installed [testng] 00:38:29,771 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15 [testng] 00:38:29,773 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - No custom configurators were discovered as a service. [testng] 00:38:29,773 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:38:29,774 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:38:29,774 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 00:38:29,774 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 00:38:29,775 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 00:38:29,775 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:38:29,775 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:38:29,776 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 00:38:29,776 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 00:38:29,776 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 00:38:29,939 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 00:38:29,939 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 00:38:29,960 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 00:38:29,961 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 00:38:29,966 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 00:38:29,966 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 00:38:29,966 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 00:38:29,966 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 00:38:29,966 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@3f6f6701 - End of configuration. [testng] 00:38:29,967 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@4f80542f - Registering current configuration as safe fallback point [testng] 00:38:29,967 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 192 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-03-16 00:38:29,976] [main] java.version = 17.0.2 [testng] 00:38:29,979 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 00:38:29,979 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:38:30,019 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-03-16_00-38-29.log] [testng] 00:38:30,021 |-INFO in ch.qos.logback.core.sift.SiftProcessor@14bdbc74 - End of configuration. [testng] [2025-03-16 00:38:30,023] [main] testng.directory = /data [testng] [2025-03-16 00:38:30,023] [main] testng.configDirectory = /config [testng] [2025-03-16 00:38:30,031] [main] testng.multiplier = 1.0 [testng] [2025-03-16 00:38:30,032] [main] testng.in-memory = false [testng] [2025-03-16 00:38:30,032] [main] testng.allow-missing = false [testng] [2025-03-16 00:38:30,032] [main] user.language = en [testng] [2025-03-16 00:38:30,032] [main] user.country = ${user.country} [testng] [2025-03-16 00:38:30,032] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2025-03-16 00:38:30,967] [main] ---------------------------------------- [testng] [2025-03-16 00:38:30,967] [main] Total files: 31 [testng] [2025-03-16 00:38:30,967] [main] Scan time: 0.935 s (30 ms/file) [testng] [2025-03-16 00:38:30,967] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 31 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-03-16 00:38:50,217] [pool-1-thread-1] Initializing /data/big-images/8kx8k-grey.bmp: [testng] 00:38:50,217 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 00:38:50,217 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:38:50,218 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-03-16_00-38-50.log] [testng] 00:38:50,219 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3d6db1bf - End of configuration. [testng] [2025-03-16 00:38:50,651] [pool-1-thread-12] Initializing /data/brian/images/kidney_TFl_1.bmp: [testng] 00:38:50,652 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 00:38:50,652 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:38:50,653 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-03-16_00-38-50.log] [testng] 00:38:50,653 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5bd15d74 - End of configuration. [testng] [2025-03-16 00:38:51,408] [pool-1-thread-11] Initializing /data/frank/cell_mask_error.bmp: [testng] 00:38:51,408 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 00:38:51,408 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:38:51,409 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-03-16_00-38-51.log] [testng] 00:38:51,409 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6c5b9c75 - End of configuration. [testng] [2025-03-16 00:38:51,998] [pool-1-thread-10] Initializing /data/dennis/kidney_TFl_One.bmp: [testng] 00:38:51,998 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 00:38:51,998 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:38:51,999 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-03-16_00-38-51.log] [testng] 00:38:51,999 |-INFO in ch.qos.logback.core.sift.SiftProcessor@53da0100 - End of configuration. [testng] [2025-03-16 00:38:52,562] [pool-1-thread-9] Initializing /data/ticket-12971/foo.bmp: [testng] 00:38:52,562 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 00:38:52,562 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:38:52,563 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-03-16_00-38-52.log] [testng] 00:38:52,564 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5172df74 - End of configuration. [testng] [2025-03-16 00:38:53,024] [pool-1-thread-8] Initializing /data/brian/images/DMSOHigh_001.bmp: [testng] 00:38:53,024 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 00:38:53,024 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:38:53,025 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-03-16_00-38-53.log] [testng] 00:38:53,025 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7d7b382a - End of configuration. [testng] [2025-03-16 00:38:53,495] [pool-1-thread-7] Initializing /data/big-images/8kx8k.bmp: [testng] 00:38:53,495 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 00:38:53,495 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:38:53,496 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-03-16_00-38-53.log] [testng] 00:38:53,496 |-INFO in ch.qos.logback.core.sift.SiftProcessor@735b60d1 - End of configuration. [testng] [2025-03-16 00:38:53,979] [pool-1-thread-6] Initializing /data/dennis/kidney_TFl_Three.bmp: [testng] 00:38:53,979 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 00:38:53,979 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:38:53,980 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-03-16_00-38-53.log] [testng] 00:38:53,981 |-INFO in ch.qos.logback.core.sift.SiftProcessor@362a0c31 - End of configuration. [testng] [2025-03-16 00:38:54,703] [pool-1-thread-5] Initializing /data/dennis/kidney_TFl_Seven.bmp: [testng] 00:38:54,703 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 00:38:54,704 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:38:54,704 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-03-16_00-38-54.log] [testng] 00:38:54,705 |-INFO in ch.qos.logback.core.sift.SiftProcessor@59198ba9 - End of configuration. [testng] [2025-03-16 00:38:55,790] [pool-1-thread-4] Initializing /data/brian/images/raw_a.bmp: [testng] 00:38:55,791 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 00:38:55,791 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:38:55,793 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-03-16_00-38-55.log] [testng] 00:38:55,794 |-INFO in ch.qos.logback.core.sift.SiftProcessor@11bb4551 - End of configuration. [testng] [2025-03-16 00:38:56,766] [pool-1-thread-3] Initializing /data/dennis/kidney_TFl_Four.bmp: [testng] 00:38:56,766 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 00:38:56,766 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:38:56,767 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-03-16_00-38-56.log] [testng] 00:38:56,767 |-INFO in ch.qos.logback.core.sift.SiftProcessor@50ddf602 - End of configuration. [testng] [2025-03-16 00:38:57,388] [pool-1-thread-2] Initializing /data/curtis/image5.bmp: [testng] 00:38:57,389 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 00:38:57,389 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:38:57,389 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-03-16_00-38-57.log] [testng] 00:38:57,390 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3965c4cc - End of configuration. [testng] [2025-03-16 00:39:04,366] [pool-1-thread-9] Initializing /data/dennis/kidney_TFl_Two.bmp: [testng] [2025-03-16 00:39:04,686] [pool-1-thread-2] Initializing /data/qa-4538/22577136_Figure 2_A_ATF6 (GST)_13572.bmp: [testng] [2025-03-16 00:39:05,032] [pool-1-thread-11] Initializing /data/brian/images/raw_a_rg.bmp: [testng] [2025-03-16 00:39:05,407] [pool-1-thread-4] Initializing /data/stephane/holo0908.bmp: [testng] [2025-03-16 00:39:05,701] [pool-1-thread-10] Initializing /data/brian/images/raw_a_rg.tiff: [testng] [2025-03-16 00:39:08,933] [pool-1-thread-12] Initializing /data/dennis/kidney_TFl_Six.bmp: [testng] [2025-03-16 00:39:09,085] [pool-1-thread-3] Initializing /data/bk/100427RBTLPC_FD3__A___5_T_001_ch_00_image_00025_Z_001.bmp: [testng] [2025-03-16 00:39:09,195] [pool-1-thread-5] Initializing /data/curtis/image3.bmp: [testng] [2025-03-16 00:39:09,297] [pool-1-thread-6] Initializing /data/brian/images/kidney_TFl_1_greyscale.bmp: [testng] [2025-03-16 00:39:09,460] [pool-1-thread-8] Initializing /data/brian/images/23srp5dksub.bmp: [testng] [2025-03-16 00:39:11,881] [pool-1-thread-1] Initializing /data/big-images/6kx6k-grey.bmp: [testng] [2025-03-16 00:39:14,566] [pool-1-thread-5] Initializing /data/curtis/image1.bmp: [testng] [2025-03-16 00:39:14,842] [pool-1-thread-6] Initializing /data/curtis/image4.bmp: [testng] [2025-03-16 00:39:15,132] [pool-1-thread-11] Initializing /data/big-images/6kx6k.bmp: [testng] [2025-03-16 00:39:15,483] [pool-1-thread-12] Initializing /data/bk/ch_00.bmp: [testng] [2025-03-16 00:39:16,059] [pool-1-thread-4] Initializing /data/curtis/image2.bmp: [testng] [2025-03-16 00:39:16,636] [pool-1-thread-8] Initializing /data/dennis/kidney_TFl_Five.bmp: [testng] [2025-03-16 00:39:17,250] [pool-1-thread-9] Initializing /data/dennis/kidney_TFl_Eight.bmp: [testng] [2025-03-16 00:39:17,826] [pool-1-thread-3] Initializing /data/dennis/kidney_TFl_Nine.bmp: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1643, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 1 minute 6 seconds Finished: SUCCESS