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Started by upstream project "BIOFORMATS-test-repo" build number 66 originally caused by: Started by upstream project "Trigger" build number 74 originally caused by: Started by user devspace Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder [BIOFORMATS-test-folder] $ /bin/bash -xe /tmp/jenkins4241488340550092624.sh + '[' bmp = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_9838_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 test-automated: [testng] File leak detector installed [testng] 07:56:19,581 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 07:56:19,583 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service. [testng] 07:56:19,583 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 07:56:19,585 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 07:56:19,585 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 07:56:19,585 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 07:56:19,586 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 07:56:19,586 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 07:56:19,586 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 07:56:19,587 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 07:56:19,587 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 07:56:19,587 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 07:56:19,898 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 07:56:19,898 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 07:56:19,927 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 07:56:19,928 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 07:56:19,937 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 07:56:19,937 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 07:56:19,937 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 07:56:19,938 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 07:56:19,938 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 07:56:19,939 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 07:56:19,939 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 353 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-05-17 07:56:19,950] [main] java.version = 1.8.0_342 [testng] 07:56:19,953 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 07:56:19,953 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:56:20,001 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-05-17_07-56-19.log] [testng] 07:56:20,004 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-05-17 07:56:20,006] [main] testng.directory = /data [testng] [2024-05-17 07:56:20,006] [main] testng.configDirectory = /config [testng] [2024-05-17 07:56:20,019] [main] testng.multiplier = 1.0 [testng] [2024-05-17 07:56:20,019] [main] testng.in-memory = false [testng] [2024-05-17 07:56:20,020] [main] testng.allow-missing = false [testng] [2024-05-17 07:56:20,020] [main] user.language = en [testng] [2024-05-17 07:56:20,020] [main] user.country = ${user.country} [testng] [2024-05-17 07:56:20,020] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-05-17 07:56:20,584] [main] ---------------------------------------- [testng] [2024-05-17 07:56:20,584] [main] Total files: 31 [testng] [2024-05-17 07:56:20,584] [main] Scan time: 0.564 s (18 ms/file) [testng] [2024-05-17 07:56:20,584] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 31 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-05-17 07:56:22,558] [pool-1-thread-2] Initializing /data/curtis/image5.bmp: [testng] 07:56:22,559 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 07:56:22,559 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:56:22,561 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-05-17_07-56-22.log] [testng] 07:56:22,562 |-INFO in ch.qos.logback.core.sift.SiftProcessor@73aaae08 - End of configuration. [testng] [2024-05-17 07:56:22,583] [pool-1-thread-12] Initializing /data/dennis/kidney_TFl_Five.bmp: [testng] 07:56:22,584 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 07:56:22,584 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:56:22,585 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-05-17_07-56-22.log] [testng] 07:56:22,586 |-INFO in ch.qos.logback.core.sift.SiftProcessor@335658c9 - End of configuration. [testng] [2024-05-17 07:56:22,595] [pool-1-thread-11] Initializing /data/ticket-12971/foo.bmp: [testng] 07:56:22,595 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 07:56:22,595 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:56:22,596 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-05-17_07-56-22.log] [testng] 07:56:22,597 |-INFO in ch.qos.logback.core.sift.SiftProcessor@50344b3f - End of configuration. [testng] [2024-05-17 07:56:22,605] [pool-1-thread-10] Initializing /data/brian/images/raw_a.bmp: [testng] 07:56:22,606 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 07:56:22,606 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:56:22,607 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-05-17_07-56-22.log] [testng] 07:56:22,607 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4331f654 - End of configuration. [testng] [2024-05-17 07:56:22,617] [pool-1-thread-9] Initializing /data/big-images/6kx6k.bmp: [testng] 07:56:22,618 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 07:56:22,618 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:56:22,619 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-05-17_07-56-22.log] [testng] 07:56:22,620 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4863c78e - End of configuration. [testng] [2024-05-17 07:56:22,637] [pool-1-thread-8] Initializing /data/brian/images/kidney_TFl_1_greyscale.bmp: [testng] 07:56:22,637 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 07:56:22,637 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:56:22,638 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-05-17_07-56-22.log] [testng] 07:56:22,639 |-INFO in ch.qos.logback.core.sift.SiftProcessor@12531d6a - End of configuration. [testng] [2024-05-17 07:56:22,650] [pool-1-thread-7] Initializing /data/brian/images/23srp5dksub.bmp: [testng] 07:56:22,651 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 07:56:22,651 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:56:22,652 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-05-17_07-56-22.log] [testng] 07:56:22,652 |-INFO in ch.qos.logback.core.sift.SiftProcessor@74a0bb90 - End of configuration. [testng] [2024-05-17 07:56:22,663] [pool-1-thread-6] Initializing /data/curtis/image3.bmp: [testng] 07:56:22,663 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 07:56:22,663 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:56:22,664 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-05-17_07-56-22.log] [testng] 07:56:22,664 |-INFO in ch.qos.logback.core.sift.SiftProcessor@d03f635 - End of configuration. [testng] [2024-05-17 07:56:22,674] [pool-1-thread-5] Initializing /data/big-images/6kx6k-grey.bmp: [testng] 07:56:22,675 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 07:56:22,675 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:56:22,676 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-05-17_07-56-22.log] [testng] 07:56:22,677 |-INFO in ch.qos.logback.core.sift.SiftProcessor@8890f9f - End of configuration. [testng] [2024-05-17 07:56:22,690] [pool-1-thread-4] Initializing /data/big-images/8kx8k.bmp: [testng] 07:56:22,690 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 07:56:22,690 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:56:22,691 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-05-17_07-56-22.log] [testng] 07:56:22,692 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5ed47ee7 - End of configuration. [testng] [2024-05-17 07:56:22,702] [pool-1-thread-3] Initializing /data/dennis/kidney_TFl_One.bmp: [testng] 07:56:22,702 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 07:56:22,702 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:56:22,703 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-05-17_07-56-22.log] [testng] 07:56:22,703 |-INFO in ch.qos.logback.core.sift.SiftProcessor@186a598 - End of configuration. [testng] [2024-05-17 07:56:22,710] [pool-1-thread-1] Initializing /data/bk/ch_00.bmp: [testng] 07:56:22,710 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 07:56:22,710 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:56:22,711 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-05-17_07-56-22.log] [testng] 07:56:22,711 |-INFO in ch.qos.logback.core.sift.SiftProcessor@178fa80e - End of configuration. [testng] [2024-05-17 07:56:24,824] [pool-1-thread-10] Initializing /data/curtis/image1.bmp: [testng] [2024-05-17 07:56:24,830] [pool-1-thread-8] Initializing /data/dennis/kidney_TFl_Eight.bmp: [testng] [2024-05-17 07:56:24,835] [pool-1-thread-2] Initializing /data/dennis/kidney_TFl_Seven.bmp: [testng] [2024-05-17 07:56:24,841] [pool-1-thread-3] Initializing /data/curtis/image2.bmp: [testng] [2024-05-17 07:56:24,846] [pool-1-thread-6] Initializing /data/dennis/kidney_TFl_Six.bmp: [testng] [2024-05-17 07:56:24,852] [pool-1-thread-11] Initializing /data/big-images/8kx8k-grey.bmp: [testng] [2024-05-17 07:56:24,860] [pool-1-thread-12] Initializing /data/dennis/kidney_TFl_Three.bmp: [testng] [2024-05-17 07:56:24,866] [pool-1-thread-7] Initializing /data/frank/cell_mask_error.bmp: [testng] [2024-05-17 07:56:25,241] [pool-1-thread-1] Initializing /data/stephane/holo0908.bmp: [testng] [2024-05-17 07:56:25,547] [pool-1-thread-3] Initializing /data/brian/images/raw_a_rg.tiff: [testng] [2024-05-17 07:56:26,019] [pool-1-thread-10] Initializing /data/brian/images/DMSOHigh_001.bmp: [testng] [2024-05-17 07:56:26,582] [pool-1-thread-6] Initializing /data/dennis/kidney_TFl_Two.bmp: [testng] [2024-05-17 07:56:26,589] [pool-1-thread-8] Initializing /data/dennis/kidney_TFl_Four.bmp: [testng] [2024-05-17 07:56:26,596] [pool-1-thread-12] Initializing /data/brian/images/raw_a_rg.bmp: [testng] [2024-05-17 07:56:26,618] [pool-1-thread-2] Initializing /data/curtis/image4.bmp: [testng] [2024-05-17 07:56:26,641] [pool-1-thread-7] Initializing /data/dennis/kidney_TFl_Nine.bmp: [testng] [2024-05-17 07:56:27,101] [pool-1-thread-3] Initializing /data/bk/100427RBTLPC_FD3__A___5_T_001_ch_00_image_00025_Z_001.bmp: [testng] [2024-05-17 07:56:27,116] [pool-1-thread-2] Initializing /data/qa-4538/22577136_Figure 2_A_ATF6 (GST)_13572.bmp: [testng] [2024-05-17 07:56:27,245] [pool-1-thread-12] Initializing /data/brian/images/kidney_TFl_1.bmp: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1643, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 30 seconds Finished: SUCCESS