Started by upstream project "BIOFORMATS-test-repo" build number 293
originally caused by:
Started by upstream project "Trigger" build number 312
originally caused by:
Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder
[BIOFORMATS-test-folder] $ /bin/bash -xe /tmp/jenkins14111688323569679289.sh
+ '[' ultraview = slidebook ']'
++ date +%u
+ '[' 2 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_46333_merge_ci -v /uod/idr/repos/curated/ultraview:/data -v /uod/idr-scratch/merge-ci/curated/ultraview:/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] 05:08:56,286 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 05:08:56,288 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - No custom configurators were discovered as a service.
[testng] 05:08:56,288 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 05:08:56,289 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 05:08:56,289 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 05:08:56,290 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 05:08:56,290 |-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] 05:08:56,290 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 05:08:56,290 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 05:08:56,291 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 05:08:56,291 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 05:08:56,292 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 05:08:56,459 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 05:08:56,460 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 05:08:56,482 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 05:08:56,482 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 05:08:56,488 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 05:08:56,488 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 05:08:56,488 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 05:08:56,488 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 05:08:56,488 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@45099dd3 - End of configuration.
[testng] 05:08:56,489 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@60099951 - Registering current configuration as safe fallback point
[testng] 05:08:56,489 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 199 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-12-17 05:08:56,498] [main] java.version = 11.0.16
[testng] 05:08:56,501 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 05:08:56,501 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:08:56,543 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-17_05-08-56.log]
[testng] 05:08:56,545 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21be3395 - End of configuration.
[testng] [2024-12-17 05:08:56,546] [main] testng.directory = /data
[testng] [2024-12-17 05:08:56,547] [main] testng.configDirectory = /config
[testng] [2024-12-17 05:08:56,557] [main] testng.multiplier = 1.0
[testng] [2024-12-17 05:08:56,558] [main] testng.in-memory = false
[testng] [2024-12-17 05:08:56,558] [main] testng.allow-missing = false
[testng] [2024-12-17 05:08:56,558] [main] user.language = en
[testng] [2024-12-17 05:08:56,558] [main] user.country = ${user.country}
[testng] [2024-12-17 05:08:56,558] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-12-17 05:09:19,268] [main] ----------------------------------------
[testng] [2024-12-17 05:09:19,268] [main] Total files: 19
[testng] [2024-12-17 05:09:19,268] [main] Scan time: 22.71 s (1195 ms/file)
[testng] [2024-12-17 05:09:19,269] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 18 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-12-17 05:09:48,398] [pool-1-thread-1] Initializing /data/chad/20080107130850/IREN200820080107130850.HTM:
[testng] 05:09:48,398 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 05:09:48,399 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:09:48,400 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-17_05-09-48.log]
[testng] 05:09:48,400 |-INFO in ch.qos.logback.core.sift.SiftProcessor@137a207b - End of configuration.
[testng] [2024-12-17 05:09:50,282] [pool-1-thread-12] Initializing /data/chad/UltraViewSamples/series 3/RAJE200820080619090142.HTM:
[testng] 05:09:50,283 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 05:09:50,283 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:09:50,283 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-17_05-09-50.log]
[testng] 05:09:50,284 |-INFO in ch.qos.logback.core.sift.SiftProcessor@64a891fe - End of configuration.
[testng] [2024-12-17 05:09:51,875] [pool-1-thread-11] Initializing /data/helio/2 copy Cnn g-tubGFP 111221#20/2 copy Cnn g-tubGFP 111221#20.htm:
[testng] 05:09:51,875 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 05:09:51,875 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:09:51,876 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-17_05-09-51.log]
[testng] 05:09:51,876 |-INFO in ch.qos.logback.core.sift.SiftProcessor@329fd594 - End of configuration.
[testng] [2024-12-17 05:09:53,651] [pool-1-thread-10] Initializing /data/todd/movement-1.htm:
[testng] 05:09:53,651 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 05:09:53,651 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:09:53,651 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-17_05-09-53.log]
[testng] 05:09:53,652 |-INFO in ch.qos.logback.core.sift.SiftProcessor@25410002 - End of configuration.
[testng] [2024-12-17 05:09:55,730] [pool-1-thread-9] Initializing /data/chad/UltraViewExample/works/CHAD200920090331181355.HTM:
[testng] 05:09:55,730 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 05:09:55,730 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:09:55,730 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-17_05-09-55.log]
[testng] 05:09:55,731 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7d5d7531 - End of configuration.
[testng] [2024-12-17 05:09:58,152] [pool-1-thread-8] Initializing /data/kate/GreenRedNoZ3T/GreenRedNoZ5T.htm:
[testng] 05:09:58,153 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 05:09:58,153 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:09:58,153 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-17_05-09-58.log]
[testng] 05:09:58,154 |-INFO in ch.qos.logback.core.sift.SiftProcessor@79170391 - End of configuration.
[testng] [2024-12-17 05:10:00,638] [pool-1-thread-7] Initializing /data/kate/GreenOnlyNoZnoT/GreenOnlyNoZnoT.htm:
[testng] 05:10:00,638 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 05:10:00,638 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:10:00,639 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-17_05-10-00.log]
[testng] 05:10:00,639 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7977734b - End of configuration.
[testng] [2024-12-17 05:10:02,896] [pool-1-thread-6] Initializing /data/kate/GreenRedNoZnoT/GreenRedNoZNoT.htm:
[testng] 05:10:02,896 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 05:10:02,896 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:10:02,896 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-17_05-10-02.log]
[testng] 05:10:02,897 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6050f5b5 - End of configuration.
[testng] [2024-12-17 05:10:05,324] [pool-1-thread-5] Initializing /data/chad/DIC/EZRA200820080626102637.HTM:
[testng] 05:10:05,324 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 05:10:05,324 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:10:05,325 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-17_05-10-05.log]
[testng] 05:10:05,325 |-INFO in ch.qos.logback.core.sift.SiftProcessor@604cc54a - End of configuration.
[testng] [2024-12-17 05:10:07,212] [pool-1-thread-4] Initializing /data/chad/UltraViewExample/doesNot/CHAD200920090331181253.HTM:
[testng] 05:10:07,212 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 05:10:07,212 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:10:07,212 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-17_05-10-07.log]
[testng] 05:10:07,213 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6fe1aae3 - End of configuration.
[testng] [2024-12-17 05:10:09,980] [pool-1-thread-3] Initializing /data/chad/UltraViewExamples/Bug/CHAD200820080724120123.HTM:
[testng] 05:10:09,980 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 05:10:09,980 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:10:09,980 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-17_05-10-09.log]
[testng] 05:10:09,981 |-INFO in ch.qos.logback.core.sift.SiftProcessor@133e29c8 - End of configuration.
[testng] [2024-12-17 05:10:12,074] [pool-1-thread-2] Initializing /data/kate/GreenRed6Z3T/GreenRed5Z5T.htm:
[testng] 05:10:12,074 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 05:10:12,075 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:10:12,075 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-17_05-10-12.log]
[testng] 05:10:12,075 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3a9ed675 - End of configuration.
[testng] [2024-12-17 05:11:17,815] [pool-1-thread-5] Initializing /data/kate/Neutrophils#18/Neutrophils#18.htm:
[testng] [2024-12-17 05:11:47,646] [pool-1-thread-10] Initializing /data/chad/UltraViewExamples/Works/CHAD200820080724121453.HTM:
[testng] [2024-12-17 05:11:59,890] [pool-1-thread-7] Initializing /data/chad/UltraViewExamples/DIC_200820080724115245/CHAD200820080724115245.HTM:
[testng] [2024-12-17 05:12:12,488] [pool-1-thread-6] Initializing /data/kate/Neutrophils#18/tiffs/Neutrophils#18.htm:
[testng] [2024-12-17 05:12:55,141] [pool-1-thread-8] Initializing /data/chad/DIC_IREN200820080107120042/IREN200820080107120042.HTM:
[testng] [2024-12-17 05:13:10,589] [pool-1-thread-7] Initializing /data/kate/GreenRed6ZnoT/GreenRed5ZNoT.htm:
[testng] 06:14:02,873 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 06:14:02,873 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 06:14:02,875 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-17_06-14-02.log]
[testng] 06:14:02,875 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1af7f0cb - End of configuration.
[testng] 06:18:22,910 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 06:18:22,910 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 06:18:22,912 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-17_06-18-22.log]
[testng] 06:18:22,912 |-INFO in ch.qos.logback.core.sift.SiftProcessor@622fdb81 - End of configuration.
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 954, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 69 minutes 30 seconds
Finished: SUCCESS