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Started by upstream project "BIOFORMATS-test-repo" build number 38 originally caused by: Started by upstream project "Trigger" build number 44 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/jenkins1326142101452957609.sh + '[' jpeg2000 = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_5376_merge_ci -v /uod/idr/repos/curated/jpeg2000:/data -v /uod/idr-scratch/merge-ci/curated/jpeg2000:/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] 10:32:55,861 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 10:32:55,863 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service. [testng] 10:32:55,863 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 10:32:55,864 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 10:32:55,864 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 10:32:55,865 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 10:32:55,865 |-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] 10:32:55,865 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 10:32:55,865 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 10:32:55,866 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 10:32:55,866 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 10:32:55,866 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 10:32:56,087 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 10:32:56,087 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 10:32:56,114 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 10:32:56,114 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 10:32:56,122 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 10:32:56,122 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 10:32:56,122 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 10:32:56,122 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 10:32:56,122 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 10:32:56,123 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 10:32:56,123 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 258 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-04-19 10:32:56,133] [main] java.version = 1.8.0_342 [testng] 10:32:56,136 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 10:32:56,136 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:32:56,180 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-04-19_10-32-56.log] [testng] 10:32:56,181 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-04-19 10:32:56,183] [main] testng.directory = /data [testng] [2024-04-19 10:32:56,183] [main] testng.configDirectory = /config [testng] [2024-04-19 10:32:56,195] [main] testng.multiplier = 1.0 [testng] [2024-04-19 10:32:56,196] [main] testng.in-memory = false [testng] [2024-04-19 10:32:56,196] [main] testng.allow-missing = false [testng] [2024-04-19 10:32:56,196] [main] user.language = en [testng] [2024-04-19 10:32:56,196] [main] user.country = ${user.country} [testng] [2024-04-19 10:32:56,196] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-04-19 10:32:58,477] [main] ---------------------------------------- [testng] [2024-04-19 10:32:58,477] [main] Total files: 31 [testng] [2024-04-19 10:32:58,477] [main] Scan time: 2.281 s (73 ms/file) [testng] [2024-04-19 10:32:58,477] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 30 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-04-19 10:33:00,796] [pool-1-thread-1] Initializing /data/vikram/Captured 4.jp2: [testng] 10:33:00,796 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 10:33:00,796 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:33:00,797 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-04-19_10-33-00.log] [testng] 10:33:00,797 |-INFO in ch.qos.logback.core.sift.SiftProcessor@614f60c7 - End of configuration. [testng] [2024-04-19 10:33:00,848] [pool-1-thread-12] Initializing /data/big-images/8kx8k.jpf: [testng] 10:33:00,848 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 10:33:00,849 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:33:00,850 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-04-19_10-33-00.log] [testng] 10:33:00,850 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3697a89b - End of configuration. [testng] [2024-04-19 10:33:00,866] [pool-1-thread-11] Initializing /data/venu/Multichannel 3a.jpg: [testng] 10:33:00,867 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 10:33:00,867 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:33:00,868 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-04-19_10-33-00.log] [testng] 10:33:00,869 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1ca10fa8 - End of configuration. [testng] [2024-04-19 10:33:01,117] [pool-1-thread-10] Initializing /data/david/C1R1_FOS.jp2: [testng] 10:33:01,117 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 10:33:01,117 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:33:01,118 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-04-19_10-33-01.log] [testng] 10:33:01,118 |-INFO in ch.qos.logback.core.sift.SiftProcessor@35009375 - End of configuration. [testng] [2024-04-19 10:33:01,137] [pool-1-thread-9] Initializing /data/david/multichannel-2d test-non MBF-type.jp2: [testng] 10:33:01,138 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 10:33:01,138 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:33:01,138 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-04-19_10-33-01.log] [testng] 10:33:01,139 |-INFO in ch.qos.logback.core.sift.SiftProcessor@e641eb0 - End of configuration. [testng] [2024-04-19 10:33:01,163] [pool-1-thread-8] Initializing /data/vikram/Captured 5.jp2: [testng] 10:33:01,164 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 10:33:01,164 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:33:01,165 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-04-19_10-33-01.log] [testng] 10:33:01,165 |-INFO in ch.qos.logback.core.sift.SiftProcessor@440e6d67 - End of configuration. [testng] [2024-04-19 10:33:01,192] [pool-1-thread-7] Initializing /data/vikram/Captured 1.jp2: [testng] 10:33:01,192 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 10:33:01,192 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:33:01,193 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-04-19_10-33-01.log] [testng] 10:33:01,193 |-INFO in ch.qos.logback.core.sift.SiftProcessor@20c1ea42 - End of configuration. [testng] [2024-04-19 10:33:01,216] [pool-1-thread-6] Initializing /data/kraig/head.jp2: [testng] 10:33:01,216 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 10:33:01,216 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:33:01,217 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-04-19_10-33-01.log] [testng] 10:33:01,217 |-INFO in ch.qos.logback.core.sift.SiftProcessor@194fb67c - End of configuration. [testng] [2024-04-19 10:33:01,247] [pool-1-thread-5] Initializing /data/misc/clown-rgb.jpc: [testng] 10:33:01,247 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 10:33:01,247 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:33:01,248 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-04-19_10-33-01.log] [testng] 10:33:01,248 |-INFO in ch.qos.logback.core.sift.SiftProcessor@280877e3 - End of configuration. [testng] [2024-04-19 10:33:01,261] [pool-1-thread-4] Initializing /data/misc/clown-rgb.jp2: [testng] 10:33:01,261 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 10:33:01,261 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:33:01,262 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-04-19_10-33-01.log] [testng] 10:33:01,262 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7789e666 - End of configuration. [testng] [2024-04-19 10:33:01,274] [pool-1-thread-3] Initializing /data/big-images/2kx2k.jpf: [testng] 10:33:01,275 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 10:33:01,275 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:33:01,276 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-04-19_10-33-01.log] [testng] 10:33:01,277 |-INFO in ch.qos.logback.core.sift.SiftProcessor@61b31dc8 - End of configuration. [testng] [2024-04-19 10:33:01,303] [pool-1-thread-2] Initializing /data/mike/LCM4-1-cr10-cleaned.jp2: [testng] 10:33:01,303 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 10:33:01,303 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:33:01,304 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-04-19_10-33-01.log] [testng] 10:33:01,304 |-INFO in ch.qos.logback.core.sift.SiftProcessor@795ce6ef - End of configuration. [testng] [2024-04-19 10:33:03,574] [pool-1-thread-11] Initializing /data/vikram/Captured 2.jp2: [testng] [2024-04-19 10:33:03,593] [pool-1-thread-7] Initializing /data/aryeh/flour 12.jp2: [testng] [2024-04-19 10:33:03,620] [pool-1-thread-5] Initializing /data/venu/Multichannel 3.jp2: [testng] [2024-04-19 10:33:03,737] [pool-1-thread-4] Initializing /data/mike/LCM-4-3-color-cleaned.tiff: [testng] [2024-04-19 10:33:03,775] [pool-1-thread-1] Initializing /data/david/multichannel-3d-MBF-type.jpx: [testng] [2024-04-19 10:33:04,178] [pool-1-thread-8] Initializing /data/david/multichannel-3d-non-MBF-trial-2.jpx: [testng] [2024-04-19 10:33:04,376] [pool-1-thread-6] Initializing /data/big-images/4kx4k.jpf: [testng] [2024-04-19 10:33:05,771] [pool-1-thread-11] Initializing /data/david/cy5-tph.jp2: [testng] [2024-04-19 10:33:06,060] [pool-1-thread-4] Initializing /data/mario/b0bCDME-0007_wB05_s1_z1_t1_cGFP_u001.jp2: [testng] [2024-04-19 10:33:06,247] [pool-1-thread-7] Initializing /data/vikram/Captured 3.jp2: [testng] [2024-04-19 10:33:07,291] [pool-1-thread-7] Initializing /data/angel/052_L050071_56_x2hv.jp2: [testng] [2024-04-19 10:33:09,985] [pool-1-thread-2] Initializing /data/frans/flower.jp2: [testng] [2024-04-19 10:33:12,771] [pool-1-thread-4] Initializing /data/misc/clown-rgb.jbig: [testng] [2024-04-19 10:33:13,113] [pool-1-thread-4] Initializing /data/david/000000_000001.jpx: [testng] [2024-04-19 10:33:13,826] [pool-1-thread-3] Initializing /data/david/multichannel-2d test.jp2: [testng] [2024-04-19 10:33:18,331] [pool-1-thread-5] Initializing /data/mike/LCM-4-3-color-cleaned.jp2: [testng] [2024-04-19 10:33:22,474] [pool-1-thread-4] Initializing /data/angel/002_L050071_32_01_09_x2.jp2: [testng] [2024-04-19 10:33:23,250] [pool-1-thread-7] Initializing /data/mike/LCM-4-3-color-cleaned-LOCI.tiff: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1590, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 5 minutes 55 seconds Finished: SUCCESS