Started by upstream project "BIOFORMATS-test-repo" build number 300
originally caused by:
Started by upstream project "Trigger" build number 322
originally caused by:
Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@9
[BIOFORMATS-test-folder@9] $ /bin/bash -xe /tmp/jenkins13266685792267187011.sh
+ '[' scanr = slidebook ']'
++ date +%u
+ '[' 5 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_47524_merge_ci -v /uod/idr/repos/curated/scanr:/data -v /uod/idr-scratch/merge-ci/curated/scanr:/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
test-automated:
[testng] File leak detector installed
[testng] 04:19:11,328 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 04:19:11,330 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service.
[testng] 04:19:11,330 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 04:19:11,331 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 04:19:11,331 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 04:19:11,331 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 04:19:11,332 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 04:19:11,332 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 04:19:11,332 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 04:19:11,332 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 04:19:11,332 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 04:19:11,333 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 04:19:11,554 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 04:19:11,555 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 04:19:11,583 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 04:19:11,583 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 04:19:11,591 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 04:19:11,591 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 04:19:11,592 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 04:19:11,592 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 04:19:11,592 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration.
[testng] 04:19:11,593 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point
[testng] 04:19:11,593 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 261 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-12-27 04:19:11,603] [main] java.version = 1.8.0_342
[testng] 04:19:11,606 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 04:19:11,606 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:19:11,655 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-27_04-19-11.log]
[testng] 04:19:11,658 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration.
[testng] [2024-12-27 04:19:11,661] [main] testng.directory = /data
[testng] [2024-12-27 04:19:11,661] [main] testng.configDirectory = /config
[testng] [2024-12-27 04:19:11,678] [main] testng.multiplier = 1.0
[testng] [2024-12-27 04:19:11,678] [main] testng.in-memory = false
[testng] [2024-12-27 04:19:11,679] [main] testng.allow-missing = false
[testng] [2024-12-27 04:19:11,679] [main] user.language = en
[testng] [2024-12-27 04:19:11,679] [main] user.country = ${user.country}
[testng] [2024-12-27 04:19:11,679] [main] Maximum heap size = 13653 MB
[testng] Scanning for files...
[testng] [2024-12-27 04:23:32,121] [main] ----------------------------------------
[testng] [2024-12-27 04:23:32,121] [main] Total files: 2169
[testng] [2024-12-27 04:23:32,121] [main] Scan time: 260.442 s (120 ms/file)
[testng] [2024-12-27 04:23:32,121] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 17 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-12-27 04:45:04,659] [pool-1-thread-1] Initializing /data/ruben/12-05-25_009/experiment_descriptor.xml:
[testng] 04:45:04,660 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 04:45:04,660 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:45:04,661 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-27_04-45-04.log]
[testng] 04:45:04,661 |-INFO in ch.qos.logback.core.sift.SiftProcessor@451b56fd - End of configuration.
[testng] [2024-12-27 04:45:26,193] [pool-1-thread-12] Initializing /data/christian/example/experiment_descriptor.xml:
[testng] 04:45:26,193 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 04:45:26,194 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:45:26,194 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-27_04-45-26.log]
[testng] 04:45:26,195 |-INFO in ch.qos.logback.core.sift.SiftProcessor@71a71837 - End of configuration.
[testng] [2024-12-27 04:45:27,152] [pool-1-thread-11] Initializing /data/embl/170309_Sec13_GM130m_001/experiment_descriptor.xml:
[testng] 04:45:27,153 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 04:45:27,153 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:45:27,153 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-27_04-45-27.log]
[testng] 04:45:27,154 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1549c3 - End of configuration.
[testng] [2024-12-27 04:46:25,675] [pool-1-thread-10] Initializing /data/ruben/plate_002/experiment_descriptor.xml:
[testng] 04:46:25,676 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 04:46:25,676 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:46:25,677 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-27_04-46-25.log]
[testng] 04:46:25,677 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6c60cc1e - End of configuration.
[testng] [2024-12-27 04:46:29,043] [pool-1-thread-9] Initializing /data/ruben/161009test2/151009_001/experiment_descriptor.xml:
[testng] 04:46:29,044 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 04:46:29,044 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:46:29,044 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-27_04-46-29.log]
[testng] 04:46:29,045 |-INFO in ch.qos.logback.core.sift.SiftProcessor@64d0e3fa - End of configuration.
[testng] [2024-12-27 04:48:35,595] [pool-1-thread-8] Initializing /data/jcb/201301120/p2/experiment_descriptor.xml:
[testng] 04:48:35,595 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 04:48:35,595 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:48:35,596 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-27_04-48-35.log]
[testng] 04:48:35,597 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3a21da0c - End of configuration.
[testng] [2024-12-27 04:51:05,167] [pool-1-thread-7] Initializing /data/embl/Maik_001/experiment_descriptor.xml:
[testng] 04:51:05,167 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 04:51:05,167 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:51:05,168 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-27_04-51-05.log]
[testng] 04:51:05,168 |-INFO in ch.qos.logback.core.sift.SiftProcessor@315c762e - End of configuration.
[testng] [2024-12-27 04:51:18,993] [pool-1-thread-6] Initializing /data/jcb/201301120/p17/experiment_descriptor.xml:
[testng] 04:51:18,994 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 04:51:18,994 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:51:18,994 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-27_04-51-18.log]
[testng] 04:51:18,995 |-INFO in ch.qos.logback.core.sift.SiftProcessor@11c89a14 - End of configuration.
[testng] [2024-12-27 04:53:38,604] [pool-1-thread-5] Initializing /data/juergen/Experiment/experiment_descriptor.xml:
[testng] 04:53:38,605 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 04:53:38,605 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:53:38,606 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-27_04-53-38.log]
[testng] 04:53:38,606 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4deb4afe - End of configuration.
[testng] [2024-12-27 04:53:39,646] [pool-1-thread-4] Initializing /data/ruben/161009test2/151009_002/experiment_descriptor.xml:
[testng] 04:53:39,646 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 04:53:39,646 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:53:39,647 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-27_04-53-39.log]
[testng] 04:53:39,647 |-INFO in ch.qos.logback.core.sift.SiftProcessor@24622208 - End of configuration.
[testng] [2024-12-27 04:55:17,714] [pool-1-thread-3] Initializing /data/gideon/experiment_descriptor.xml:
[testng] 04:55:17,714 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 04:55:17,714 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:55:17,715 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-27_04-55-17.log]
[testng] 04:55:17,715 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6d65ba08 - End of configuration.
[testng] [2024-12-27 04:55:46,714] [pool-1-thread-2] Initializing /data/ruben/TestPlate_Mock_01_001/experiment_descriptor.xml:
[testng] 04:55:46,714 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 04:55:46,714 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:55:46,715 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-27_04-55-46.log]
[testng] 04:55:46,716 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4b301ed3 - End of configuration.
[testng] [2024-12-27 04:56:24,332] [pool-1-thread-12] Initializing /data/ruben/20100827_004/experiment_descriptor.xml:
[testng] [2024-12-27 04:59:13,539] [pool-1-thread-5] Initializing /data/nadine/experiment_descriptor.xml:
[testng] [2024-12-27 05:00:20,101] [pool-1-thread-5] Initializing /data/ruben/scanr_no_labels/Peter/experiment_descriptor.xml:
[testng] [2024-12-27 05:02:14,884] [pool-1-thread-10] Initializing /data/public/idr0009/0307-10--2007-05-30/experiment_descriptor.xml:
[testng] [2024-12-27 05:08:06,572] [pool-1-thread-7] Initializing /data/ruben/280809_8wellLT_008/experiment_descriptor.xml:
[testng] 06:09:24,325 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 06:09:24,325 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 06:09:24,326 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-27_06-09-24.log]
[testng] 06:09:24,327 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5d5393e5 - End of configuration.
[testng] 06:11:39,542 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 06:11:39,542 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 06:11:39,544 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-27_06-11-39.log]
[testng] 06:11:39,545 |-INFO in ch.qos.logback.core.sift.SiftProcessor@b34fe30 - End of configuration.
[testng] 06:53:24,548 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 06:53:24,548 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 06:53:24,550 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-27_06-53-24.log]
[testng] 06:53:24,550 |-INFO in ch.qos.logback.core.sift.SiftProcessor@537df70b - End of configuration.
[testng] 07:03:25,484 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 07:03:25,484 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 07:03:25,484 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-27_07-03-25.log]
[testng] 07:03:25,485 |-INFO in ch.qos.logback.core.sift.SiftProcessor@35dd4595 - End of configuration.
[testng] 07:03:26,238 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 07:03:26,238 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 07:03:26,239 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-27_07-03-26.log]
[testng] 07:03:26,239 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7f405495 - End of configuration.
[testng] 07:06:59,111 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 07:06:59,111 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 07:06:59,112 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-27_07-06-59.log]
[testng] 07:06:59,112 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7688fb76 - End of configuration.
[testng] 07:07:02,729 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 07:07:02,729 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 07:07:02,730 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-27_07-07-02.log]
[testng] 07:07:02,730 |-INFO in ch.qos.logback.core.sift.SiftProcessor@33c19e64 - End of configuration.
[testng] 07:16:19,290 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 07:16:19,291 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 07:16:19,291 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-27_07-16-19.log]
[testng] 07:16:19,292 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4c6e3c25 - End of configuration.
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 901, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 177 minutes 10 seconds
Finished: SUCCESS