Started by upstream project "BIOFORMATS-test-repo" build number 312
originally caused by:
Started by upstream project "Trigger" build number 334
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/jenkins16073354854245386695.sh
+ '[' gatan-dm2 = slidebook ']'
++ date +%u
+ '[' 3 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_49445_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] 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] 01:22:44,766 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 01:22:44,768 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - No custom configurators were discovered as a service.
[testng] 01:22:44,768 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 01:22:44,769 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 01:22:44,770 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 01:22:44,770 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 01:22:44,770 |-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] 01:22:44,770 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 01:22:44,771 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 01:22:44,772 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 01:22:44,772 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 01:22:44,773 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 01:22:44,962 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 01:22:44,962 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 01:22:44,984 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 01:22:44,984 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 01:22:44,990 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 01:22:44,990 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 01:22:44,990 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 01:22:44,990 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 01:22:44,991 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2e3967ea - End of configuration.
[testng] 01:22:44,991 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@2e6a8155 - Registering current configuration as safe fallback point
[testng] 01:22:44,991 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 220 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2025-01-08 01:22:45,000] [main] java.version = 17.0.2
[testng] 01:22:45,003 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 01:22:45,003 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:22:45,042 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-01-08_01-22-45.log]
[testng] 01:22:45,044 |-INFO in ch.qos.logback.core.sift.SiftProcessor@798162bc - End of configuration.
[testng] [2025-01-08 01:22:45,045] [main] testng.directory = /data
[testng] [2025-01-08 01:22:45,046] [main] testng.configDirectory = /config
[testng] [2025-01-08 01:22:45,054] [main] testng.multiplier = 1.0
[testng] [2025-01-08 01:22:45,055] [main] testng.in-memory = false
[testng] [2025-01-08 01:22:45,055] [main] testng.allow-missing = false
[testng] [2025-01-08 01:22:45,055] [main] user.language = en
[testng] [2025-01-08 01:22:45,056] [main] user.country = ${user.country}
[testng] [2025-01-08 01:22:45,056] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2025-01-08 01:23:13,875] [main] ----------------------------------------
[testng] [2025-01-08 01:23:13,875] [main] Total files: 25
[testng] [2025-01-08 01:23:13,875] [main] Scan time: 28.819 s (1152 ms/file)
[testng] [2025-01-08 01:23:13,875] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 18 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2025-01-08 01:23:44,221] [pool-1-thread-1] Initializing /data/imagic/not read correctly/Zucchini.dm2:
[testng] 01:23:44,222 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 01:23:44,222 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:23:44,223 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-01-08_01-23-44.log]
[testng] 01:23:44,223 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5ed016d5 - End of configuration.
[testng] [2025-01-08 01:23:44,622] [pool-1-thread-12] Initializing /data/pang/DLMeD2E1_010500x03.dm2:
[testng] 01:23:44,622 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 01:23:44,622 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:23:44,623 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-01-08_01-23-44.log]
[testng] 01:23:44,624 |-INFO in ch.qos.logback.core.sift.SiftProcessor@68069dd - End of configuration.
[testng] [2025-01-08 01:23:45,094] [pool-1-thread-11] Initializing /data/pang/screen capture of metadata/tem_dm_tags_info1.png:
[testng] 01:23:45,094 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 01:23:45,094 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:23:45,095 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-01-08_01-23-45.log]
[testng] 01:23:45,095 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5e8659dc - End of configuration.
[testng] [2025-01-08 01:23:45,185] [pool-1-thread-10] Initializing /data/pang/screen capture of metadata/tem_dm_keywords_info.png:
[testng] 01:23:45,186 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 01:23:45,186 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:23:45,186 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-01-08_01-23-45.log]
[testng] 01:23:45,187 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4ac45a98 - End of configuration.
[testng] [2025-01-08 01:23:45,281] [pool-1-thread-9] Initializing /data/imagic/not read correctly/Abeta Moon_preview.png:
[testng] 01:23:45,281 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 01:23:45,281 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:23:45,282 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-01-08_01-23-45.log]
[testng] 01:23:45,283 |-INFO in ch.qos.logback.core.sift.SiftProcessor@488ee045 - End of configuration.
[testng] [2025-01-08 01:23:45,375] [pool-1-thread-8] Initializing /data/pang/screen capture of metadata/tem_dm_general_info.png:
[testng] 01:23:45,375 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 01:23:45,375 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:23:45,376 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-01-08_01-23-45.log]
[testng] 01:23:45,376 |-INFO in ch.qos.logback.core.sift.SiftProcessor@93c487d - End of configuration.
[testng] [2025-01-08 01:23:45,487] [pool-1-thread-7] Initializing /data/pang/screen capture of metadata/tem_dm_tags_info2.png:
[testng] 01:23:45,487 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 01:23:45,487 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:23:45,488 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-01-08_01-23-45.log]
[testng] 01:23:45,488 |-INFO in ch.qos.logback.core.sift.SiftProcessor@729ac800 - End of configuration.
[testng] [2025-01-08 01:23:45,557] [pool-1-thread-6] Initializing /data/imagic/1-1.dm2:
[testng] 01:23:45,558 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 01:23:45,558 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:23:45,558 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-01-08_01-23-45.log]
[testng] 01:23:45,559 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4e87210f - End of configuration.
[testng] [2025-01-08 01:23:45,988] [pool-1-thread-5] Initializing /data/pang/signed:
[testng] 01:23:45,988 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 01:23:45,988 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:23:45,989 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-01-08_01-23-45.log]
[testng] 01:23:45,989 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6f292e87 - End of configuration.
[testng] [2025-01-08 01:23:46,497] [pool-1-thread-4] Initializing /data/imagic/not read correctly/Zucchini_preview.png:
[testng] 01:23:46,497 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 01:23:46,497 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:23:46,498 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-01-08_01-23-46.log]
[testng] 01:23:46,498 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3f5f1e20 - End of configuration.
[testng] [2025-01-08 01:23:46,570] [pool-1-thread-3] Initializing /data/imagic/13008.dm2:
[testng] 01:23:46,570 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 01:23:46,570 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:23:46,571 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-01-08_01-23-46.log]
[testng] 01:23:46,571 |-INFO in ch.qos.logback.core.sift.SiftProcessor@77192367 - End of configuration.
[testng] [2025-01-08 01:23:46,964] [pool-1-thread-2] Initializing /data/pang/unproc-auto:
[testng] 01:23:46,964 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 01:23:46,964 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:23:46,965 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-01-08_01-23-46.log]
[testng] 01:23:46,965 |-INFO in ch.qos.logback.core.sift.SiftProcessor@44b7cb58 - End of configuration.
[testng] [2025-01-08 01:23:50,993] [pool-1-thread-10] Initializing /data/imagic/not read correctly/Abeta Moon.dm2:
[testng] [2025-01-08 01:23:51,612] [pool-1-thread-11] Initializing /data/imagic/Histiocyte in Skin Dermis.dm2:
[testng] [2025-01-08 01:23:52,191] [pool-1-thread-8] Initializing /data/pang/grating025k.dm2:
[testng] [2025-01-08 01:23:52,880] [pool-1-thread-4] Initializing /data/imagic/TEM 10118.dm2:
[testng] [2025-01-08 01:23:53,538] [pool-1-thread-7] Initializing /data/pang/10500x-o4:
[testng] [2025-01-08 01:23:54,496] [pool-1-thread-9] Initializing /data/pang/screen capture of metadata/tem_dm_microscope_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 20 seconds
Finished: SUCCESS