Started by upstream project "BIOFORMATS-test-repo" build number 271
originally caused by:
Started by upstream project "Trigger" build number 293
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/jenkins9447154971092856058.sh
+ '[' gatan-dm2 = slidebook ']'
++ date +%u
+ '[' 4 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_42698_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[javac] warning: [options] source value 8 is obsolete and will be removed in a future release
[javac] warning: [options] target value 8 is obsolete and will be removed in a future release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] 01:43:03,030 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 01:43:03,032 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - No custom configurators were discovered as a service.
[testng] 01:43:03,032 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 01:43:03,033 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 01:43:03,033 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 01:43:03,034 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 01:43:03,034 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 01:43:03,034 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 01:43:03,035 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 01:43:03,035 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 01:43:03,036 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 01:43:03,036 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 01:43:03,218 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 01:43:03,219 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 01:43:03,251 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 01:43:03,251 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 01:43:03,260 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 01:43:03,260 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 01:43:03,260 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 01:43:03,261 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 01:43:03,261 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@29215f06 - End of configuration.
[testng] 01:43:03,262 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@b9b00e0 - Registering current configuration as safe fallback point
[testng] 01:43:03,262 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 227 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-11-28 01:43:03,276] [main] java.version = 21
[testng] 01:43:03,280 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 01:43:03,280 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:43:03,339 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-28_01-43-03.log]
[testng] 01:43:03,340 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1b919693 - End of configuration.
[testng] [2024-11-28 01:43:03,342] [main] testng.directory = /data
[testng] [2024-11-28 01:43:03,342] [main] testng.configDirectory = /config
[testng] [2024-11-28 01:43:03,353] [main] testng.multiplier = 1.0
[testng] [2024-11-28 01:43:03,354] [main] testng.in-memory = false
[testng] [2024-11-28 01:43:03,354] [main] testng.allow-missing = false
[testng] [2024-11-28 01:43:03,354] [main] user.language = en
[testng] [2024-11-28 01:43:03,354] [main] user.country = ${user.country}
[testng] [2024-11-28 01:43:03,354] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-11-28 01:43:23,771] [main] ----------------------------------------
[testng] [2024-11-28 01:43:23,772] [main] Total files: 25
[testng] [2024-11-28 01:43:23,772] [main] Scan time: 20.417 s (816 ms/file)
[testng] [2024-11-28 01:43:23,772] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 18 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-11-28 01:43:52,138] [pool-1-thread-1] Initializing /data/pang/screen capture of metadata/tem_dm_tags_info2.png:
[testng] 01:43:52,138 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 01:43:52,138 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:43:52,140 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-11-28_01-43-52.log]
[testng] 01:43:52,140 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1295ec86 - End of configuration.
[testng] [2024-11-28 01:43:52,208] [pool-1-thread-12] Initializing /data/imagic/TEM 10118.dm2:
[testng] 01:43:52,208 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 01:43:52,208 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:43:52,209 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-11-28_01-43-52.log]
[testng] 01:43:52,210 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5bb97f3e - End of configuration.
[testng] [2024-11-28 01:43:52,546] [pool-1-thread-11] Initializing /data/imagic/not read correctly/Abeta Moon.dm2:
[testng] 01:43:52,546 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 01:43:52,546 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:43:52,547 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-11-28_01-43-52.log]
[testng] 01:43:52,548 |-INFO in ch.qos.logback.core.sift.SiftProcessor@26587460 - End of configuration.
[testng] [2024-11-28 01:43:52,944] [pool-1-thread-10] Initializing /data/pang/unproc-auto:
[testng] 01:43:52,944 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 01:43:52,944 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:43:52,945 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-11-28_01-43-52.log]
[testng] 01:43:52,946 |-INFO in ch.qos.logback.core.sift.SiftProcessor@569bd599 - End of configuration.
[testng] [2024-11-28 01:43:53,416] [pool-1-thread-9] Initializing /data/pang/screen capture of metadata/tem_dm_tags_info1.png:
[testng] 01:43:53,417 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 01:43:53,417 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:43:53,417 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-11-28_01-43-53.log]
[testng] 01:43:53,418 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5c5e1c51 - End of configuration.
[testng] [2024-11-28 01:43:53,488] [pool-1-thread-8] Initializing /data/imagic/1-1.dm2:
[testng] 01:43:53,488 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 01:43:53,488 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:43:53,489 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-11-28_01-43-53.log]
[testng] 01:43:53,490 |-INFO in ch.qos.logback.core.sift.SiftProcessor@59ba4406 - End of configuration.
[testng] [2024-11-28 01:43:53,888] [pool-1-thread-7] Initializing /data/imagic/not read correctly/Abeta Moon_preview.png:
[testng] 01:43:53,889 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 01:43:53,889 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:43:53,889 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-11-28_01-43-53.log]
[testng] 01:43:53,890 |-INFO in ch.qos.logback.core.sift.SiftProcessor@677b36e9 - End of configuration.
[testng] [2024-11-28 01:43:53,959] [pool-1-thread-6] Initializing /data/pang/signed:
[testng] 01:43:53,959 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 01:43:53,959 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:43:53,960 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-11-28_01-43-53.log]
[testng] 01:43:53,961 |-INFO in ch.qos.logback.core.sift.SiftProcessor@691ce870 - End of configuration.
[testng] [2024-11-28 01:43:54,325] [pool-1-thread-5] Initializing /data/imagic/Histiocyte in Skin Dermis.dm2:
[testng] 01:43:54,325 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 01:43:54,325 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:43:54,326 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-11-28_01-43-54.log]
[testng] 01:43:54,326 |-INFO in ch.qos.logback.core.sift.SiftProcessor@17de64cd - End of configuration.
[testng] [2024-11-28 01:43:54,643] [pool-1-thread-4] Initializing /data/pang/10500x-o4:
[testng] 01:43:54,644 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 01:43:54,644 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:43:54,644 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-11-28_01-43-54.log]
[testng] 01:43:54,645 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5a2c10ca - End of configuration.
[testng] [2024-11-28 01:43:55,057] [pool-1-thread-3] Initializing /data/imagic/not read correctly/Zucchini_preview.png:
[testng] 01:43:55,057 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 01:43:55,057 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:43:55,058 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-11-28_01-43-55.log]
[testng] 01:43:55,058 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2df47633 - End of configuration.
[testng] [2024-11-28 01:43:55,141] [pool-1-thread-2] Initializing /data/pang/screen capture of metadata/tem_dm_keywords_info.png:
[testng] 01:43:55,142 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 01:43:55,142 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:43:55,142 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-11-28_01-43-55.log]
[testng] 01:43:55,143 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3d331697 - End of configuration.
[testng] [2024-11-28 01:43:58,964] [pool-1-thread-7] Initializing /data/imagic/13008.dm2:
[testng] [2024-11-28 01:43:59,299] [pool-1-thread-2] Initializing /data/imagic/not read correctly/Zucchini.dm2:
[testng] [2024-11-28 01:43:59,610] [pool-1-thread-1] Initializing /data/pang/screen capture of metadata/tem_dm_microscope_info.png:
[testng] [2024-11-28 01:43:59,673] [pool-1-thread-9] Initializing /data/pang/DLMeD2E1_010500x03.dm2:
[testng] [2024-11-28 01:44:00,122] [pool-1-thread-3] Initializing /data/pang/grating025k.dm2:
[testng] [2024-11-28 01:44:00,722] [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: 1 minute 3 seconds
Finished: SUCCESS