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Started by upstream project "BIOFORMATS-test-repo" build number 384 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/jenkins3892247715085645140.sh + '[' bmp = slidebook ']' ++ date +%u + '[' 3 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_60707_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] 12:06:38,189 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15 [testng] 12:06:38,190 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - No custom configurators were discovered as a service. [testng] 12:06:38,190 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 12:06:38,191 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 12:06:38,191 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 12:06:38,191 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 12:06:38,192 |-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] 12:06:38,192 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 12:06:38,192 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 12:06:38,193 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 12:06:38,193 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 12:06:38,193 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 12:06:38,357 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 12:06:38,357 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 12:06:38,381 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 12:06:38,381 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 12:06:38,386 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 12:06:38,386 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 12:06:38,386 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 12:06:38,387 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 12:06:38,387 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@3f6f6701 - End of configuration. [testng] 12:06:38,388 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@4f80542f - Registering current configuration as safe fallback point [testng] 12:06:38,388 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 196 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-03-19 12:06:38,397] [main] java.version = 17.0.2 [testng] 12:06:38,400 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 12:06:38,400 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:06:38,441 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-03-19_12-06-38.log] [testng] 12:06:38,442 |-INFO in ch.qos.logback.core.sift.SiftProcessor@14bdbc74 - End of configuration. [testng] [2025-03-19 12:06:38,444] [main] testng.directory = /data [testng] [2025-03-19 12:06:38,444] [main] testng.configDirectory = /config [testng] [2025-03-19 12:06:38,453] [main] testng.multiplier = 1.0 [testng] [2025-03-19 12:06:38,454] [main] testng.in-memory = false [testng] [2025-03-19 12:06:38,454] [main] testng.allow-missing = false [testng] [2025-03-19 12:06:38,454] [main] user.language = en [testng] [2025-03-19 12:06:38,454] [main] user.country = ${user.country} [testng] [2025-03-19 12:06:38,454] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2025-03-19 12:06:42,960] [main] ---------------------------------------- [testng] [2025-03-19 12:06:42,960] [main] Total files: 31 [testng] [2025-03-19 12:06:42,960] [main] Scan time: 4.506 s (145 ms/file) [testng] [2025-03-19 12:06:42,960] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 31 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-03-19 12:06:49,965] [pool-1-thread-1] Initializing /data/big-images/8kx8k-grey.bmp: [testng] 12:06:49,966 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 12:06:49,966 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:06:49,967 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-03-19_12-06-49.log] [testng] 12:06:49,967 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7675dccd - End of configuration. [testng] [2025-03-19 12:06:50,108] [pool-1-thread-12] Initializing /data/brian/images/kidney_TFl_1.bmp: [testng] 12:06:50,109 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 12:06:50,109 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:06:50,110 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-03-19_12-06-50.log] [testng] 12:06:50,110 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6d6fde07 - End of configuration. [testng] [2025-03-19 12:06:50,231] [pool-1-thread-11] Initializing /data/frank/cell_mask_error.bmp: [testng] 12:06:50,231 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 12:06:50,231 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:06:50,232 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-03-19_12-06-50.log] [testng] 12:06:50,233 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5df9bae7 - End of configuration. [testng] [2025-03-19 12:06:50,369] [pool-1-thread-10] Initializing /data/dennis/kidney_TFl_One.bmp: [testng] 12:06:50,370 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 12:06:50,370 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:06:50,370 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-03-19_12-06-50.log] [testng] 12:06:50,371 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3a381df0 - End of configuration. [testng] [2025-03-19 12:06:50,518] [pool-1-thread-9] Initializing /data/ticket-12971/foo.bmp: [testng] 12:06:50,518 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 12:06:50,518 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:06:50,519 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-03-19_12-06-50.log] [testng] 12:06:50,519 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3696316c - End of configuration. [testng] [2025-03-19 12:06:50,647] [pool-1-thread-8] Initializing /data/brian/images/DMSOHigh_001.bmp: [testng] 12:06:50,647 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 12:06:50,647 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:06:50,648 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-03-19_12-06-50.log] [testng] 12:06:50,648 |-INFO in ch.qos.logback.core.sift.SiftProcessor@92bcccf - End of configuration. [testng] [2025-03-19 12:06:50,787] [pool-1-thread-7] Initializing /data/big-images/8kx8k.bmp: [testng] 12:06:50,787 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 12:06:50,787 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:06:50,788 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-03-19_12-06-50.log] [testng] 12:06:50,788 |-INFO in ch.qos.logback.core.sift.SiftProcessor@63183898 - End of configuration. [testng] [2025-03-19 12:06:50,930] [pool-1-thread-6] Initializing /data/dennis/kidney_TFl_Three.bmp: [testng] 12:06:50,931 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 12:06:50,931 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:06:50,932 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-03-19_12-06-50.log] [testng] 12:06:50,932 |-INFO in ch.qos.logback.core.sift.SiftProcessor@735b60d1 - End of configuration. [testng] [2025-03-19 12:06:51,145] [pool-1-thread-5] Initializing /data/dennis/kidney_TFl_Seven.bmp: [testng] 12:06:51,146 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 12:06:51,146 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:06:51,146 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-03-19_12-06-51.log] [testng] 12:06:51,147 |-INFO in ch.qos.logback.core.sift.SiftProcessor@47bfbaa8 - End of configuration. [testng] [2025-03-19 12:06:51,265] [pool-1-thread-4] Initializing /data/brian/images/raw_a.bmp: [testng] 12:06:51,265 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 12:06:51,265 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:06:51,266 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-03-19_12-06-51.log] [testng] 12:06:51,266 |-INFO in ch.qos.logback.core.sift.SiftProcessor@362a0c31 - End of configuration. [testng] [2025-03-19 12:06:51,392] [pool-1-thread-3] Initializing /data/dennis/kidney_TFl_Four.bmp: [testng] 12:06:51,392 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 12:06:51,392 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:06:51,393 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-03-19_12-06-51.log] [testng] 12:06:51,393 |-INFO in ch.qos.logback.core.sift.SiftProcessor@59198ba9 - End of configuration. [testng] [2025-03-19 12:06:51,539] [pool-1-thread-2] Initializing /data/curtis/image5.bmp: [testng] 12:06:51,539 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 12:06:51,539 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:06:51,540 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-03-19_12-06-51.log] [testng] 12:06:51,540 |-INFO in ch.qos.logback.core.sift.SiftProcessor@11bb4551 - End of configuration. [testng] [2025-03-19 12:06:54,458] [pool-1-thread-9] Initializing /data/dennis/kidney_TFl_Two.bmp: [testng] [2025-03-19 12:06:54,642] [pool-1-thread-2] Initializing /data/brian/images/23srp5dksub.bmp: [testng] [2025-03-19 12:06:54,900] [pool-1-thread-4] Initializing /data/brian/images/kidney_TFl_1_greyscale.bmp: [testng] [2025-03-19 12:06:55,247] [pool-1-thread-6] Initializing /data/curtis/image3.bmp: [testng] [2025-03-19 12:06:55,386] [pool-1-thread-3] Initializing /data/stephane/holo0908.bmp: [testng] [2025-03-19 12:06:55,542] [pool-1-thread-12] Initializing /data/brian/images/raw_a_rg.tiff: [testng] [2025-03-19 12:06:57,369] [pool-1-thread-10] Initializing /data/dennis/kidney_TFl_Six.bmp: [testng] [2025-03-19 12:06:57,527] [pool-1-thread-5] Initializing /data/bk/100427RBTLPC_FD3__A___5_T_001_ch_00_image_00025_Z_001.bmp: [testng] [2025-03-19 12:06:57,647] [pool-1-thread-11] Initializing /data/brian/images/raw_a_rg.bmp: [testng] [2025-03-19 12:06:57,764] [pool-1-thread-8] Initializing /data/qa-4538/22577136_Figure 2_A_ATF6 (GST)_13572.bmp: [testng] [2025-03-19 12:06:58,686] [pool-1-thread-4] Initializing /data/big-images/6kx6k-grey.bmp: [testng] [2025-03-19 12:06:58,841] [pool-1-thread-2] Initializing /data/curtis/image1.bmp: [testng] [2025-03-19 12:06:58,970] [pool-1-thread-9] Initializing /data/big-images/6kx6k.bmp: [testng] [2025-03-19 12:06:59,818] [pool-1-thread-6] Initializing /data/curtis/image4.bmp: [testng] [2025-03-19 12:06:59,987] [pool-1-thread-11] Initializing /data/curtis/image2.bmp: [testng] [2025-03-19 12:07:00,184] [pool-1-thread-10] Initializing /data/bk/ch_00.bmp: [testng] [2025-03-19 12:07:00,356] [pool-1-thread-3] Initializing /data/dennis/kidney_TFl_Eight.bmp: [testng] [2025-03-19 12:07:00,655] [pool-1-thread-5] Initializing /data/dennis/kidney_TFl_Five.bmp: [testng] [2025-03-19 12:07:00,893] [pool-1-thread-8] 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: 44 seconds Finished: SUCCESS