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Started by upstream project "BIOFORMATS-test-repo" build number 282 originally caused by: Started by user devspace 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/jenkins10333486164039281166.sh + '[' afi = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_44518_merge_ci -v /uod/idr/repos/curated/afi:/data -v /uod/idr-scratch/merge-ci/curated/afi:/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] 11:28:44,863 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 11:28:44,864 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 11:28:44,864 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 11:28:44,865 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 11:28:44,866 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 11:28:44,866 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 11:28:44,866 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 11:28:44,866 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 11:28:44,867 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 11:28:44,867 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 11:28:44,867 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 11:28:44,867 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 11:28:45,096 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 11:28:45,096 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 11:28:45,123 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 11:28:45,123 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 11:28:45,131 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 11:28:45,132 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 11:28:45,132 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 11:28:45,132 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 11:28:45,132 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 11:28:45,133 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 11:28:45,133 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 266 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-12-06 11:28:45,143] [main] java.version = 1.8.0_342 [testng] 11:28:45,146 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 11:28:45,147 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:28:45,193 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-06_11-28-45.log] [testng] 11:28:45,195 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2024-12-06 11:28:45,197] [main] testng.directory = /data [testng] [2024-12-06 11:28:45,197] [main] testng.configDirectory = /config [testng] [2024-12-06 11:28:45,210] [main] testng.multiplier = 1.0 [testng] [2024-12-06 11:28:45,210] [main] testng.in-memory = false [testng] [2024-12-06 11:28:45,210] [main] testng.allow-missing = false [testng] [2024-12-06 11:28:45,210] [main] user.language = en [testng] [2024-12-06 11:28:45,210] [main] user.country = ${user.country} [testng] [2024-12-06 11:28:45,211] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-12-06 11:28:46,758] [main] ---------------------------------------- [testng] [2024-12-06 11:28:46,758] [main] Total files: 16 [testng] [2024-12-06 11:28:46,758] [main] Scan time: 1.547 s (96 ms/file) [testng] [2024-12-06 11:28:46,758] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 15 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-12-06 11:29:01,544] [pool-1-thread-1] Initializing /data/samples/5351.afi: [testng] 11:29:01,544 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 11:29:01,545 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:29:01,545 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-06_11-29-01.log] [testng] 11:29:01,546 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3092566a - End of configuration. [testng] [2024-12-06 11:29:01,890] [pool-1-thread-12] Initializing /data/samples/5440.afi: [testng] 11:29:01,891 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 11:29:01,891 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:29:01,891 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-06_11-29-01.log] [testng] 11:29:01,892 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36db5936 - End of configuration. [testng] [2024-12-06 11:29:02,302] [pool-1-thread-11] Initializing /data/samples/5407.afi: [testng] 11:29:02,302 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 11:29:02,302 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:29:02,303 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-06_11-29-02.log] [testng] 11:29:02,303 |-INFO in ch.qos.logback.core.sift.SiftProcessor@35f90285 - End of configuration. [testng] [2024-12-06 11:29:02,743] [pool-1-thread-10] Initializing /data/samples/5365.afi: [testng] 11:29:02,743 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 11:29:02,743 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:29:02,744 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-06_11-29-02.log] [testng] 11:29:02,744 |-INFO in ch.qos.logback.core.sift.SiftProcessor@649fd666 - End of configuration. [testng] [2024-12-06 11:29:03,101] [pool-1-thread-9] Initializing /data/samples/5339.afi: [testng] 11:29:03,102 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 11:29:03,102 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:29:03,102 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-06_11-29-03.log] [testng] 11:29:03,103 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4d30d59f - End of configuration. [testng] [2024-12-06 11:29:03,467] [pool-1-thread-8] Initializing /data/samples/5343.afi: [testng] 11:29:03,467 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 11:29:03,467 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:29:03,468 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-06_11-29-03.log] [testng] 11:29:03,468 |-INFO in ch.qos.logback.core.sift.SiftProcessor@40386025 - End of configuration. [testng] [2024-12-06 11:29:04,034] [pool-1-thread-7] Initializing /data/samples/5347.afi: [testng] 11:29:04,034 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 11:29:04,034 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:29:04,035 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-06_11-29-04.log] [testng] 11:29:04,035 |-INFO in ch.qos.logback.core.sift.SiftProcessor@247e41e6 - End of configuration. [testng] [2024-12-06 11:29:04,366] [pool-1-thread-6] Initializing /data/samples/5383.afi: [testng] 11:29:04,366 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 11:29:04,366 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:29:04,367 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-06_11-29-04.log] [testng] 11:29:04,367 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2fd3c18f - End of configuration. [testng] [2024-12-06 11:29:04,785] [pool-1-thread-5] Initializing /data/samples/5400.afi: [testng] 11:29:04,785 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 11:29:04,785 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:29:04,785 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-06_11-29-04.log] [testng] 11:29:04,786 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1ac99820 - End of configuration. [testng] [2024-12-06 11:29:05,187] [pool-1-thread-4] Initializing /data/samples/5371.afi: [testng] 11:29:05,187 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 11:29:05,187 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:29:05,188 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-06_11-29-05.log] [testng] 11:29:05,188 |-INFO in ch.qos.logback.core.sift.SiftProcessor@253bb622 - End of configuration. [testng] [2024-12-06 11:29:05,675] [pool-1-thread-3] Initializing /data/samples/5446.afi: [testng] 11:29:05,676 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 11:29:05,676 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:29:05,676 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-06_11-29-05.log] [testng] 11:29:05,677 |-INFO in ch.qos.logback.core.sift.SiftProcessor@ad3190c - End of configuration. [testng] [2024-12-06 11:29:06,045] [pool-1-thread-2] Initializing /data/samples/5306.afi: [testng] 11:29:06,046 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 11:29:06,046 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:29:06,046 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-06_11-29-06.log] [testng] 11:29:06,047 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5e503aae - End of configuration. [testng] [2024-12-06 11:29:45,575] [pool-1-thread-3] Initializing /data/samples/5387.afi: [testng] [2024-12-06 11:29:46,478] [pool-1-thread-5] Initializing /data/samples/5358.afi: [testng] [2024-12-06 11:29:47,727] [pool-1-thread-12] Initializing /data/samples/5414.afi: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 795, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 1 minute 44 seconds Finished: SUCCESS