Started by upstream project "BIOFORMATS-test-repo" build number 223
originally caused by:
Started by upstream project "Trigger" build number 250
originally caused by:
Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@10
[BIOFORMATS-test-folder@10] $ /bin/bash -xe /tmp/jenkins10472001223011346368.sh
+ '[' gatan-dm2 = slidebook ']'
++ date +%u
+ '[' 4 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_35400_merge_ci -v /uod/idr/repos/curated/gatan-dm2:/data -v /uod/idr-scratch/merge-ci/curated/gatan-dm2:/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[javac] warning: [options] source value 8 is obsolete and will be removed in a future release
[javac] warning: [options] target value 8 is obsolete and will be removed in a future release
[javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options.
[javac] 4 warnings
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] 06:03:30,535 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 06:03:30,537 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - No custom configurators were discovered as a service.
[testng] 06:03:30,537 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 06:03:30,538 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 06:03:30,538 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 06:03:30,538 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 06:03:30,539 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 2 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 06:03:30,539 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 06:03:30,539 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 06:03:30,540 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 06:03:30,540 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 06:03:30,540 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 06:03:30,706 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 06:03:30,706 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 06:03:30,732 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 06:03:30,732 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 06:03:30,739 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 06:03:30,739 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 06:03:30,740 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 06:03:30,740 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 06:03:30,740 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@29215f06 - End of configuration.
[testng] 06:03:30,741 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@b9b00e0 - Registering current configuration as safe fallback point
[testng] 06:03:30,741 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 202 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-10-17 06:03:30,750] [main] java.version = 21
[testng] 06:03:30,754 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 06:03:30,754 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 06:03:30,797 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-17_06-03-30.log]
[testng] 06:03:30,799 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1b919693 - End of configuration.
[testng] [2024-10-17 06:03:30,801] [main] testng.directory = /data
[testng] [2024-10-17 06:03:30,801] [main] testng.configDirectory = /config
[testng] [2024-10-17 06:03:30,810] [main] testng.multiplier = 1.0
[testng] [2024-10-17 06:03:30,811] [main] testng.in-memory = false
[testng] [2024-10-17 06:03:30,811] [main] testng.allow-missing = false
[testng] [2024-10-17 06:03:30,811] [main] user.language = en
[testng] [2024-10-17 06:03:30,811] [main] user.country = ${user.country}
[testng] [2024-10-17 06:03:30,811] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-10-17 06:05:05,377] [main] ----------------------------------------
[testng] [2024-10-17 06:05:05,377] [main] Total files: 25
[testng] [2024-10-17 06:05:05,377] [main] Scan time: 94.566 s (3782 ms/file)
[testng] [2024-10-17 06:05:05,378] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 18 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-10-17 06:06:49,318] [pool-1-thread-1] Initializing /data/pang/screen capture of metadata/tem_dm_tags_info2.png:
[testng] 06:06:49,318 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 06:06:49,318 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 06:06:49,320 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-17_06-06-49.log]
[testng] 06:06:49,320 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6b477040 - End of configuration.
[testng] [2024-10-17 06:06:49,590] [pool-1-thread-12] Initializing /data/imagic/TEM 10118.dm2:
[testng] 06:06:49,590 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 06:06:49,590 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 06:06:49,591 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-10-17_06-06-49.log]
[testng] 06:06:49,591 |-INFO in ch.qos.logback.core.sift.SiftProcessor@329fd594 - End of configuration.
[testng] [2024-10-17 06:06:51,047] [pool-1-thread-11] Initializing /data/imagic/not read correctly/Abeta Moon.dm2:
[testng] 06:06:51,047 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 06:06:51,048 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 06:06:51,049 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-10-17_06-06-51.log]
[testng] 06:06:51,049 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4dde17da - End of configuration.
[testng] [2024-10-17 06:06:53,034] [pool-1-thread-10] Initializing /data/pang/unproc-auto:
[testng] 06:06:53,034 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 06:06:53,034 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 06:06:53,035 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-17_06-06-53.log]
[testng] 06:06:53,035 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3d331697 - End of configuration.
[testng] [2024-10-17 06:06:55,448] [pool-1-thread-9] Initializing /data/pang/screen capture of metadata/tem_dm_tags_info1.png:
[testng] 06:06:55,448 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 06:06:55,448 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 06:06:55,449 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-17_06-06-55.log]
[testng] 06:06:55,449 |-INFO in ch.qos.logback.core.sift.SiftProcessor@571ac318 - End of configuration.
[testng] [2024-10-17 06:06:55,850] [pool-1-thread-8] Initializing /data/imagic/1-1.dm2:
[testng] 06:06:55,850 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 06:06:55,850 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 06:06:55,850 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-17_06-06-55.log]
[testng] 06:06:55,851 |-INFO in ch.qos.logback.core.sift.SiftProcessor@605b712d - End of configuration.
[testng] [2024-10-17 06:06:57,279] [pool-1-thread-7] Initializing /data/imagic/not read correctly/Abeta Moon_preview.png:
[testng] 06:06:57,279 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 06:06:57,279 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 06:06:57,280 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-17_06-06-57.log]
[testng] 06:06:57,281 |-INFO in ch.qos.logback.core.sift.SiftProcessor@79170391 - End of configuration.
[testng] [2024-10-17 06:06:57,427] [pool-1-thread-6] Initializing /data/pang/signed:
[testng] 06:06:57,427 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 06:06:57,427 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 06:06:57,428 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-17_06-06-57.log]
[testng] 06:06:57,428 |-INFO in ch.qos.logback.core.sift.SiftProcessor@59e7a2e6 - End of configuration.
[testng] [2024-10-17 06:06:58,631] [pool-1-thread-5] Initializing /data/imagic/Histiocyte in Skin Dermis.dm2:
[testng] 06:06:58,631 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 06:06:58,631 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 06:06:58,632 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-17_06-06-58.log]
[testng] 06:06:58,632 |-INFO in ch.qos.logback.core.sift.SiftProcessor@50b15497 - End of configuration.
[testng] [2024-10-17 06:06:59,732] [pool-1-thread-4] Initializing /data/pang/10500x-o4:
[testng] 06:06:59,733 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 06:06:59,733 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 06:06:59,733 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-17_06-06-59.log]
[testng] 06:06:59,734 |-INFO in ch.qos.logback.core.sift.SiftProcessor@141fc1fc - End of configuration.
[testng] [2024-10-17 06:07:01,745] [pool-1-thread-3] Initializing /data/imagic/not read correctly/Zucchini_preview.png:
[testng] 06:07:01,745 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 06:07:01,746 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 06:07:01,746 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-17_06-07-01.log]
[testng] 06:07:01,746 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7230887c - End of configuration.
[testng] [2024-10-17 06:07:02,047] [pool-1-thread-2] Initializing /data/pang/screen capture of metadata/tem_dm_keywords_info.png:
[testng] 06:07:02,047 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 06:07:02,047 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 06:07:02,048 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-17_06-07-02.log]
[testng] 06:07:02,048 |-INFO in ch.qos.logback.core.sift.SiftProcessor@e6cf46b - End of configuration.
[testng] [2024-10-17 06:07:11,267] [pool-1-thread-3] Initializing /data/imagic/13008.dm2:
[testng] [2024-10-17 06:07:12,611] [pool-1-thread-2] Initializing /data/imagic/not read correctly/Zucchini.dm2:
[testng] [2024-10-17 06:07:14,385] [pool-1-thread-9] Initializing /data/pang/screen capture of metadata/tem_dm_microscope_info.png:
[testng] [2024-10-17 06:07:14,697] [pool-1-thread-7] Initializing /data/pang/DLMeD2E1_010500x03.dm2:
[testng] [2024-10-17 06:07:16,435] [pool-1-thread-1] Initializing /data/pang/grating025k.dm2:
[testng] [2024-10-17 06:07:22,491] [pool-1-thread-11] Initializing /data/pang/screen capture of metadata/tem_dm_general_info.png:
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 954, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 4 minutes 3 seconds
Finished: SUCCESS