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Started by upstream project "BIOFORMATS-test-repo" build number 239 originally caused by: Started by upstream project "Trigger" build number 264 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@4 [BIOFORMATS-test-folder@4] $ /bin/bash -xe /tmp/jenkins17616143131012356652.sh + '[' afi = slidebook ']' ++ date +%u + '[' 3 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_37593_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 [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] 01:39:39,568 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 01:39:39,569 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - No custom configurators were discovered as a service. [testng] 01:39:39,569 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:39:39,570 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:39:39,570 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:39:39,571 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:39:39,571 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 01:39:39,571 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:39:39,571 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:39:39,572 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:39:39,572 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:39:39,572 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:39:39,740 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:39:39,740 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:39:39,762 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:39:39,762 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:39:39,768 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:39:39,768 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:39:39,768 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:39:39,768 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:39:39,768 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2e3967ea - End of configuration. [testng] 01:39:39,769 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@2e6a8155 - Registering current configuration as safe fallback point [testng] 01:39:39,769 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 198 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-10-30 01:39:39,778] [main] java.version = 17.0.2 [testng] 01:39:39,781 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:39:39,782 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:39:39,827 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-30_01-39-39.log] [testng] 01:39:39,828 |-INFO in ch.qos.logback.core.sift.SiftProcessor@798162bc - End of configuration. [testng] [2024-10-30 01:39:39,830] [main] testng.directory = /data [testng] [2024-10-30 01:39:39,830] [main] testng.configDirectory = /config [testng] [2024-10-30 01:39:39,838] [main] testng.multiplier = 1.0 [testng] [2024-10-30 01:39:39,839] [main] testng.in-memory = false [testng] [2024-10-30 01:39:39,839] [main] testng.allow-missing = false [testng] [2024-10-30 01:39:39,839] [main] user.language = en [testng] [2024-10-30 01:39:39,839] [main] user.country = ${user.country} [testng] [2024-10-30 01:39:39,839] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-10-30 01:39:41,317] [main] ---------------------------------------- [testng] [2024-10-30 01:39:41,317] [main] Total files: 16 [testng] [2024-10-30 01:39:41,317] [main] Scan time: 1.477 s (92 ms/file) [testng] [2024-10-30 01:39:41,317] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 15 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-10-30 01:39:55,544] [pool-1-thread-1] Initializing /data/samples/5440.afi: [testng] 01:39:55,544 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:39:55,544 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:39:55,545 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-30_01-39-55.log] [testng] 01:39:55,546 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2f1568b4 - End of configuration. [testng] [2024-10-30 01:39:55,937] [pool-1-thread-12] Initializing /data/samples/5339.afi: [testng] 01:39:55,938 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:39:55,938 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:39:55,939 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-10-30_01-39-55.log] [testng] 01:39:55,939 |-INFO in ch.qos.logback.core.sift.SiftProcessor@d1fe317 - End of configuration. [testng] [2024-10-30 01:39:56,515] [pool-1-thread-11] Initializing /data/samples/5383.afi: [testng] 01:39:56,516 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:39:56,516 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:39:56,516 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-10-30_01-39-56.log] [testng] 01:39:56,517 |-INFO in ch.qos.logback.core.sift.SiftProcessor@575ec31e - End of configuration. [testng] [2024-10-30 01:39:56,876] [pool-1-thread-10] Initializing /data/samples/5306.afi: [testng] 01:39:56,876 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:39:56,876 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:39:56,877 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-30_01-39-56.log] [testng] 01:39:56,877 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2c5519f7 - End of configuration. [testng] [2024-10-30 01:39:57,185] [pool-1-thread-9] Initializing /data/samples/5351.afi: [testng] 01:39:57,185 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:39:57,185 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:39:57,186 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-30_01-39-57.log] [testng] 01:39:57,187 |-INFO in ch.qos.logback.core.sift.SiftProcessor@15476813 - End of configuration. [testng] [2024-10-30 01:39:57,633] [pool-1-thread-8] Initializing /data/samples/5400.afi: [testng] 01:39:57,634 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:39:57,634 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:39:57,635 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-30_01-39-57.log] [testng] 01:39:57,635 |-INFO in ch.qos.logback.core.sift.SiftProcessor@458de70b - End of configuration. [testng] [2024-10-30 01:39:57,945] [pool-1-thread-7] Initializing /data/samples/5387.afi: [testng] 01:39:57,945 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:39:57,945 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:39:57,946 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-30_01-39-57.log] [testng] 01:39:57,947 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3b5898b5 - End of configuration. [testng] [2024-10-30 01:39:58,388] [pool-1-thread-6] Initializing /data/samples/5365.afi: [testng] 01:39:58,388 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:39:58,388 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:39:58,389 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-30_01-39-58.log] [testng] 01:39:58,390 |-INFO in ch.qos.logback.core.sift.SiftProcessor@67b43042 - End of configuration. [testng] [2024-10-30 01:39:58,717] [pool-1-thread-5] Initializing /data/samples/5407.afi: [testng] 01:39:58,717 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:39:58,718 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:39:58,718 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-30_01-39-58.log] [testng] 01:39:58,719 |-INFO in ch.qos.logback.core.sift.SiftProcessor@bbc398d - End of configuration. [testng] [2024-10-30 01:39:59,039] [pool-1-thread-4] Initializing /data/samples/5343.afi: [testng] 01:39:59,039 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:39:59,039 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:39:59,040 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-30_01-39-59.log] [testng] 01:39:59,040 |-INFO in ch.qos.logback.core.sift.SiftProcessor@34e132d6 - End of configuration. [testng] [2024-10-30 01:39:59,388] [pool-1-thread-3] Initializing /data/samples/5371.afi: [testng] 01:39:59,388 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:39:59,388 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:39:59,389 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-30_01-39-59.log] [testng] 01:39:59,389 |-INFO in ch.qos.logback.core.sift.SiftProcessor@a69588b - End of configuration. [testng] [2024-10-30 01:39:59,729] [pool-1-thread-2] Initializing /data/samples/5347.afi: [testng] 01:39:59,729 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:39:59,730 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:39:59,730 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-30_01-39-59.log] [testng] 01:39:59,730 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1bba09e1 - End of configuration. [testng] [2024-10-30 01:40:43,668] [pool-1-thread-10] Initializing /data/samples/5358.afi: [testng] [2024-10-30 01:40:48,991] [pool-1-thread-6] Initializing /data/samples/5446.afi: [testng] [2024-10-30 01:40:50,232] [pool-1-thread-8] 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 57 seconds Finished: SUCCESS