Started by upstream project "BIOFORMATS-test-repo" build number 72
originally caused by:
Started by upstream project "Trigger" build number 80
originally caused by:
Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@7
[BIOFORMATS-test-folder@7] $ /bin/bash -xe /tmp/jenkins14600915037316749185.sh
+ '[' gatan-dm2 = slidebook ']'
++ date +%u
+ '[' 4 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_10864_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[javac] warning: [options] source value 8 is obsolete and will be removed in a future release
[javac] warning: [options] target value 8 is obsolete and will be removed in a future release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] 01:42:41,409 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 01:42:41,411 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - No custom configurators were discovered as a service.
[testng] 01:42:41,411 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 01:42:41,412 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 01:42:41,413 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 01:42:41,413 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 01:42:41,414 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 2 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 01:42:41,414 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 01:42:41,414 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 01:42:41,415 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 01:42:41,415 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 01:42:41,416 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 01:42:41,587 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 01:42:41,587 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 01:42:41,613 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 01:42:41,613 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 01:42:41,620 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 01:42:41,620 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 01:42:41,620 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 01:42:41,621 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 01:42:41,621 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@d9345cd - End of configuration.
[testng] 01:42:41,622 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@48aca48b - Registering current configuration as safe fallback point
[testng] 01:42:41,622 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 208 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-05-23 01:42:41,632] [main] java.version = 21
[testng] 01:42:41,635 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 01:42:41,635 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:42:41,679 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-05-23_01-42-41.log]
[testng] 01:42:41,681 |-INFO in ch.qos.logback.core.sift.SiftProcessor@71687585 - End of configuration.
[testng] [2024-05-23 01:42:41,682] [main] testng.directory = /data
[testng] [2024-05-23 01:42:41,683] [main] testng.configDirectory = /config
[testng] [2024-05-23 01:42:41,692] [main] testng.multiplier = 1.0
[testng] [2024-05-23 01:42:41,692] [main] testng.in-memory = false
[testng] [2024-05-23 01:42:41,693] [main] testng.allow-missing = false
[testng] [2024-05-23 01:42:41,693] [main] user.language = en
[testng] [2024-05-23 01:42:41,693] [main] user.country = ${user.country}
[testng] [2024-05-23 01:42:41,693] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-05-23 01:42:42,841] [main] ----------------------------------------
[testng] [2024-05-23 01:42:42,841] [main] Total files: 25
[testng] [2024-05-23 01:42:42,841] [main] Scan time: 1.148 s (45 ms/file)
[testng] [2024-05-23 01:42:42,842] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 18 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-05-23 01:42:43,918] [pool-1-thread-1] Initializing /data/imagic/not read correctly/Zucchini_preview.png:
[testng] 01:42:43,920 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 01:42:43,921 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:42:43,923 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-05-23_01-42-43.log]
[testng] 01:42:43,924 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5db6dce6 - End of configuration.
[testng] [2024-05-23 01:42:43,936] [pool-1-thread-12] Initializing /data/imagic/13008.dm2:
[testng] 01:42:43,936 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 01:42:43,936 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:42:43,937 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-05-23_01-42-43.log]
[testng] 01:42:43,938 |-INFO in ch.qos.logback.core.sift.SiftProcessor@46e5202b - End of configuration.
[testng] [2024-05-23 01:42:43,962] [pool-1-thread-11] Initializing /data/imagic/Histiocyte in Skin Dermis.dm2:
[testng] 01:42:43,962 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 01:42:43,962 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:42:43,964 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-05-23_01-42-43.log]
[testng] 01:42:43,964 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5f5acf23 - End of configuration.
[testng] [2024-05-23 01:42:43,981] [pool-1-thread-10] Initializing /data/pang/screen capture of metadata/tem_dm_microscope_info.png:
[testng] 01:42:43,981 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 01:42:43,981 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:42:43,982 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-05-23_01-42-43.log]
[testng] 01:42:43,983 |-INFO in ch.qos.logback.core.sift.SiftProcessor@185ff927 - End of configuration.
[testng] [2024-05-23 01:42:43,988] [pool-1-thread-9] Initializing /data/pang/DLMeD2E1_010500x03.dm2:
[testng] 01:42:43,988 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 01:42:43,988 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:42:43,989 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-05-23_01-42-43.log]
[testng] 01:42:43,989 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3a072e6a - End of configuration.
[testng] [2024-05-23 01:42:44,015] [pool-1-thread-8] Initializing /data/imagic/not read correctly/Zucchini.dm2:
[testng] 01:42:44,016 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 01:42:44,016 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:42:44,017 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-05-23_01-42-44.log]
[testng] 01:42:44,018 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4e8e3837 - End of configuration.
[testng] [2024-05-23 01:42:44,032] [pool-1-thread-7] Initializing /data/pang/screen capture of metadata/tem_dm_keywords_info.png:
[testng] 01:42:44,032 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 01:42:44,033 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:42:44,033 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-05-23_01-42-44.log]
[testng] 01:42:44,034 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7c33812f - End of configuration.
[testng] [2024-05-23 01:42:44,042] [pool-1-thread-6] Initializing /data/pang/10500x-o4:
[testng] 01:42:44,042 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 01:42:44,042 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:42:44,044 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-05-23_01-42-44.log]
[testng] 01:42:44,044 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4eb1de71 - End of configuration.
[testng] [2024-05-23 01:42:44,060] [pool-1-thread-5] Initializing /data/pang/screen capture of metadata/tem_dm_general_info.png:
[testng] 01:42:44,060 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 01:42:44,060 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:42:44,061 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-05-23_01-42-44.log]
[testng] 01:42:44,061 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3cc56c92 - End of configuration.
[testng] [2024-05-23 01:42:44,065] [pool-1-thread-4] Initializing /data/imagic/1-1.dm2:
[testng] 01:42:44,065 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 01:42:44,065 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:42:44,066 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-05-23_01-42-44.log]
[testng] 01:42:44,066 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5d327e6 - End of configuration.
[testng] [2024-05-23 01:42:44,091] [pool-1-thread-3] Initializing /data/pang/signed:
[testng] 01:42:44,091 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 01:42:44,092 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:42:44,092 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-05-23_01-42-44.log]
[testng] 01:42:44,093 |-INFO in ch.qos.logback.core.sift.SiftProcessor@8b51a9f - End of configuration.
[testng] [2024-05-23 01:42:44,106] [pool-1-thread-2] Initializing /data/imagic/not read correctly/Abeta Moon.dm2:
[testng] 01:42:44,106 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 01:42:44,107 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:42:44,108 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-05-23_01-42-44.log]
[testng] 01:42:44,108 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7cbd6d30 - End of configuration.
[testng] [2024-05-23 01:42:45,792] [pool-1-thread-2] Initializing /data/imagic/not read correctly/Abeta Moon_preview.png:
[testng] [2024-05-23 01:42:45,796] [pool-1-thread-3] Initializing /data/imagic/TEM 10118.dm2:
[testng] [2024-05-23 01:42:45,809] [pool-1-thread-1] Initializing /data/pang/screen capture of metadata/tem_dm_tags_info1.png:
[testng] [2024-05-23 01:42:45,813] [pool-1-thread-7] Initializing /data/pang/unproc-auto:
[testng] [2024-05-23 01:42:45,826] [pool-1-thread-5] Initializing /data/pang/grating025k.dm2:
[testng] [2024-05-23 01:42:45,836] [pool-1-thread-10] Initializing /data/pang/screen capture of metadata/tem_dm_tags_info2.png:
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 954, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 7 seconds
Finished: SUCCESS