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Started by upstream project "BIOFORMATS-test-repo" build number 250 originally caused by: Started by upstream project "Trigger" build number 274 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/jenkins9683172646802989266.sh + '[' bmp = slidebook ']' ++ date +%u + '[' 6 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_39341_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] 00:29:48,888 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 00:29:48,889 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - No custom configurators were discovered as a service. [testng] 00:29:48,889 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:29:48,890 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:29:48,891 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 00:29:48,891 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 00:29:48,891 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 00:29:48,891 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:29:48,892 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:29:48,892 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 00:29:48,893 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 00:29:48,893 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 00:29:49,058 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 00:29:49,058 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 00:29:49,079 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 00:29:49,079 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 00:29:49,085 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 00:29:49,085 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 00:29:49,085 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 00:29:49,085 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 00:29:49,085 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@45099dd3 - End of configuration. [testng] 00:29:49,086 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@60099951 - Registering current configuration as safe fallback point [testng] 00:29:49,086 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 194 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-11-09 00:29:49,095] [main] java.version = 11.0.16 [testng] 00:29:49,097 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 00:29:49,098 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:49,138 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-09_00-29-49.log] [testng] 00:29:49,140 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21be3395 - End of configuration. [testng] [2024-11-09 00:29:49,142] [main] testng.directory = /data [testng] [2024-11-09 00:29:49,142] [main] testng.configDirectory = /config [testng] [2024-11-09 00:29:49,151] [main] testng.multiplier = 1.0 [testng] [2024-11-09 00:29:49,153] [main] testng.in-memory = false [testng] [2024-11-09 00:29:49,153] [main] testng.allow-missing = false [testng] [2024-11-09 00:29:49,153] [main] user.language = en [testng] [2024-11-09 00:29:49,153] [main] user.country = ${user.country} [testng] [2024-11-09 00:29:49,153] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-11-09 00:29:50,676] [main] ---------------------------------------- [testng] [2024-11-09 00:29:50,676] [main] Total files: 31 [testng] [2024-11-09 00:29:50,677] [main] Scan time: 1.523 s (49 ms/file) [testng] [2024-11-09 00:29:50,677] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 31 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-11-09 00:29:56,418] [pool-1-thread-1] Initializing /data/big-images/8kx8k.bmp: [testng] 00:29:56,419 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 00:29:56,420 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:56,422 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-11-09_00-29-56.log] [testng] 00:29:56,423 |-INFO in ch.qos.logback.core.sift.SiftProcessor@f2ab7b3 - End of configuration. [testng] [2024-11-09 00:29:56,537] [pool-1-thread-12] Initializing /data/dennis/kidney_TFl_Nine.bmp: [testng] 00:29:56,537 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 00:29:56,538 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:56,654 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-11-09_00-29-56.log] [testng] 00:29:56,655 |-INFO in ch.qos.logback.core.sift.SiftProcessor@20aaec3 - End of configuration. [testng] [2024-11-09 00:29:56,772] [pool-1-thread-11] Initializing /data/stephane/holo0908.bmp: [testng] 00:29:56,772 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 00:29:56,772 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:56,773 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-11-09_00-29-56.log] [testng] 00:29:56,774 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7844693b - End of configuration. [testng] [2024-11-09 00:29:56,883] [pool-1-thread-10] Initializing /data/dennis/kidney_TFl_Seven.bmp: [testng] 00:29:56,884 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 00:29:56,884 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:56,884 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-11-09_00-29-56.log] [testng] 00:29:56,885 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5b894ba5 - End of configuration. [testng] [2024-11-09 00:29:57,001] [pool-1-thread-9] Initializing /data/dennis/kidney_TFl_Five.bmp: [testng] 00:29:57,002 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 00:29:57,002 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:57,002 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-11-09_00-29-57.log] [testng] 00:29:57,002 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4dc10141 - End of configuration. [testng] [2024-11-09 00:29:57,125] [pool-1-thread-8] Initializing /data/curtis/image2.bmp: [testng] 00:29:57,125 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 00:29:57,126 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:57,126 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-11-09_00-29-57.log] [testng] 00:29:57,127 |-INFO in ch.qos.logback.core.sift.SiftProcessor@76920921 - End of configuration. [testng] [2024-11-09 00:29:57,237] [pool-1-thread-7] Initializing /data/big-images/8kx8k-grey.bmp: [testng] 00:29:57,238 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 00:29:57,238 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:57,238 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-11-09_00-29-57.log] [testng] 00:29:57,239 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2a22bdd4 - End of configuration. [testng] [2024-11-09 00:29:57,362] [pool-1-thread-6] Initializing /data/ticket-12971/foo.bmp: [testng] 00:29:57,362 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 00:29:57,362 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:57,363 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-11-09_00-29-57.log] [testng] 00:29:57,364 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5c2033c4 - End of configuration. [testng] [2024-11-09 00:29:57,487] [pool-1-thread-5] Initializing /data/curtis/image3.bmp: [testng] 00:29:57,487 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 00:29:57,487 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:57,488 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-11-09_00-29-57.log] [testng] 00:29:57,488 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4380f286 - End of configuration. [testng] [2024-11-09 00:29:57,609] [pool-1-thread-4] Initializing /data/bk/100427RBTLPC_FD3__A___5_T_001_ch_00_image_00025_Z_001.bmp: [testng] 00:29:57,609 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 00:29:57,609 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:57,610 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-11-09_00-29-57.log] [testng] 00:29:57,611 |-INFO in ch.qos.logback.core.sift.SiftProcessor@8f9a0aa - End of configuration. [testng] [2024-11-09 00:29:57,748] [pool-1-thread-3] Initializing /data/big-images/6kx6k.bmp: [testng] 00:29:57,748 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 00:29:57,748 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:57,749 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-11-09_00-29-57.log] [testng] 00:29:57,749 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13968f97 - End of configuration. [testng] [2024-11-09 00:29:57,978] [pool-1-thread-2] Initializing /data/brian/images/kidney_TFl_1_greyscale.bmp: [testng] 00:29:57,979 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 00:29:57,979 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:57,980 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-11-09_00-29-57.log] [testng] 00:29:57,980 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4ac45a98 - End of configuration. [testng] [2024-11-09 00:30:01,759] [pool-1-thread-6] Initializing /data/qa-4538/22577136_Figure 2_A_ATF6 (GST)_13572.bmp: [testng] [2024-11-09 00:30:01,877] [pool-1-thread-5] Initializing /data/curtis/image1.bmp: [testng] [2024-11-09 00:30:01,990] [pool-1-thread-8] Initializing /data/dennis/kidney_TFl_Three.bmp: [testng] [2024-11-09 00:30:02,098] [pool-1-thread-2] Initializing /data/dennis/kidney_TFl_One.bmp: [testng] [2024-11-09 00:30:02,229] [pool-1-thread-10] Initializing /data/dennis/kidney_TFl_Eight.bmp: [testng] [2024-11-09 00:30:02,329] [pool-1-thread-9] Initializing /data/curtis/image4.bmp: [testng] [2024-11-09 00:30:02,431] [pool-1-thread-12] Initializing /data/brian/images/raw_a_rg.tiff: [testng] [2024-11-09 00:30:03,692] [pool-1-thread-4] Initializing /data/curtis/image5.bmp: [testng] [2024-11-09 00:30:03,805] [pool-1-thread-11] Initializing /data/brian/images/kidney_TFl_1.bmp: [testng] [2024-11-09 00:30:05,920] [pool-1-thread-4] Initializing /data/brian/images/23srp5dksub.bmp: [testng] [2024-11-09 00:30:06,050] [pool-1-thread-9] Initializing /data/big-images/6kx6k-grey.bmp: [testng] [2024-11-09 00:30:06,178] [pool-1-thread-5] Initializing /data/brian/images/raw_a_rg.bmp: [testng] [2024-11-09 00:30:06,296] [pool-1-thread-10] Initializing /data/bk/ch_00.bmp: [testng] [2024-11-09 00:30:06,422] [pool-1-thread-8] Initializing /data/frank/cell_mask_error.bmp: [testng] [2024-11-09 00:30:06,540] [pool-1-thread-2] Initializing /data/dennis/kidney_TFl_Two.bmp: [testng] [2024-11-09 00:30:06,647] [pool-1-thread-11] Initializing /data/brian/images/raw_a.bmp: [testng] [2024-11-09 00:30:07,319] [pool-1-thread-6] Initializing /data/dennis/kidney_TFl_Four.bmp: [testng] [2024-11-09 00:30:08,788] [pool-1-thread-11] Initializing /data/dennis/kidney_TFl_Six.bmp: [testng] [2024-11-09 00:30:08,948] [pool-1-thread-5] 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: 39 seconds Finished: SUCCESS