Started by upstream project "BIOFORMATS-test-repo" build number 92
originally caused by:
Started by upstream project "Trigger" build number 103
originally caused by:
Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@5
[BIOFORMATS-test-folder@5] $ /bin/bash -xe /tmp/jenkins5222542550470091206.sh
+ '[' nifti = slidebook ']'
++ date +%u
+ '[' 5 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_14226_merge_ci -v /uod/idr/repos/curated/nifti:/data -v /uod/idr-scratch/merge-ci/curated/nifti:/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] 02:47:31,391 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 02:47:31,393 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service.
[testng] 02:47:31,393 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 02:47:31,394 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 02:47:31,395 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 02:47:31,395 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 02:47:31,395 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 02:47:31,395 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 02:47:31,396 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 02:47:31,396 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 02:47:31,396 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 02:47:31,396 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 02:47:31,631 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 02:47:31,632 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 02:47:31,660 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 02:47:31,660 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 02:47:31,669 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 02:47:31,669 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 02:47:31,670 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 02:47:31,670 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 02:47:31,670 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration.
[testng] 02:47:31,671 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point
[testng] 02:47:31,671 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 275 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-06-14 02:47:31,681] [main] java.version = 1.8.0_342
[testng] 02:47:31,685 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 02:47:31,685 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:47:31,737 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-06-14_02-47-31.log]
[testng] 02:47:31,739 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration.
[testng] [2024-06-14 02:47:31,742] [main] testng.directory = /data
[testng] [2024-06-14 02:47:31,742] [main] testng.configDirectory = /config
[testng] [2024-06-14 02:47:31,755] [main] testng.multiplier = 1.0
[testng] [2024-06-14 02:47:31,756] [main] testng.in-memory = false
[testng] [2024-06-14 02:47:31,756] [main] testng.allow-missing = false
[testng] [2024-06-14 02:47:31,756] [main] user.language = en
[testng] [2024-06-14 02:47:31,756] [main] user.country = ${user.country}
[testng] [2024-06-14 02:47:31,756] [main] Maximum heap size = 13653 MB
[testng] Scanning for files...
[testng] [2024-06-14 02:47:32,658] [main] ----------------------------------------
[testng] [2024-06-14 02:47:32,658] [main] Total files: 23
[testng] [2024-06-14 02:47:32,659] [main] Scan time: 0.902 s (39 ms/file)
[testng] [2024-06-14 02:47:32,659] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 20 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-06-14 02:47:37,851] [pool-1-thread-1] Initializing /data/public/NIH/filtered_func_data.nii.gz:
[testng] 02:47:37,852 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 02:47:37,852 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:47:37,853 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-06-14_02-47-37.log]
[testng] 02:47:37,853 |-INFO in ch.qos.logback.core.sift.SiftProcessor@62392934 - End of configuration.
[testng] [2024-06-14 02:47:40,768] [pool-1-thread-12] Initializing /data/public/NIH/minimal.nii:
[testng] 02:47:40,769 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 02:47:40,769 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:47:40,770 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-06-14_02-47-40.log]
[testng] 02:47:40,771 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6a538da8 - End of configuration.
[testng] [2024-06-14 02:47:40,788] [pool-1-thread-11] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_25_conf_94.hdr:
[testng] 02:47:40,788 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 02:47:40,788 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:47:40,789 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-06-14_02-47-40.log]
[testng] 02:47:40,789 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4a783e83 - End of configuration.
[testng] [2024-06-14 02:47:40,805] [pool-1-thread-10] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_28_conf_100.hdr:
[testng] 02:47:40,805 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 02:47:40,805 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:47:40,806 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-06-14_02-47-40.log]
[testng] 02:47:40,806 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4aa79e67 - End of configuration.
[testng] [2024-06-14 02:47:40,819] [pool-1-thread-9] Initializing /data/qa-17334/volume4d.nii:
[testng] 02:47:40,819 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 02:47:40,819 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:47:40,820 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-06-14_02-47-40.log]
[testng] 02:47:40,820 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1164770a - End of configuration.
[testng] [2024-06-14 02:47:40,840] [pool-1-thread-8] Initializing /data/public/NIH/avg152T1_RL_nifti.nii.gz:
[testng] 02:47:40,840 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 02:47:40,840 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:47:40,840 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-06-14_02-47-40.log]
[testng] 02:47:40,841 |-INFO in ch.qos.logback.core.sift.SiftProcessor@350bea04 - End of configuration.
[testng] [2024-06-14 02:47:41,046] [pool-1-thread-7] Initializing /data/public/NIH/avg152T1_LR_nifti.nii.gz:
[testng] 02:47:41,046 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 02:47:41,046 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:47:41,047 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-06-14_02-47-41.log]
[testng] 02:47:41,047 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1eef6903 - End of configuration.
[testng] [2024-06-14 02:47:41,276] [pool-1-thread-6] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_28_conf_94.hdr:
[testng] 02:47:41,276 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 02:47:41,276 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:47:41,277 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-06-14_02-47-41.log]
[testng] 02:47:41,277 |-INFO in ch.qos.logback.core.sift.SiftProcessor@486117b5 - End of configuration.
[testng] [2024-06-14 02:47:41,289] [pool-1-thread-5] Initializing /data/public/NIH/filtered_func_data.nii:
[testng] 02:47:41,289 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 02:47:41,289 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:47:41,290 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-06-14_02-47-41.log]
[testng] 02:47:41,291 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1ce3049e - End of configuration.
[testng] [2024-06-14 02:47:41,311] [pool-1-thread-4] Initializing /data/public/NIH/avg152T1_LR_nifti.nii:
[testng] 02:47:41,311 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 02:47:41,311 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:47:41,311 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-06-14_02-47-41.log]
[testng] 02:47:41,312 |-INFO in ch.qos.logback.core.sift.SiftProcessor@722016ab - End of configuration.
[testng] [2024-06-14 02:47:41,329] [pool-1-thread-3] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_25_conf_100.hdr:
[testng] 02:47:41,329 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 02:47:41,329 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:47:41,330 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-06-14_02-47-41.log]
[testng] 02:47:41,330 |-INFO in ch.qos.logback.core.sift.SiftProcessor@494cdca3 - End of configuration.
[testng] [2024-06-14 02:47:41,339] [pool-1-thread-2] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_27_conf_86.hdr:
[testng] 02:47:41,340 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 02:47:41,340 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:47:41,340 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-06-14_02-47-41.log]
[testng] 02:47:41,341 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1585cf6f - End of configuration.
[testng] [2024-06-14 02:47:42,601] [pool-1-thread-12] Initializing /data/public/NIH/zstat1.nii:
[testng] [2024-06-14 02:47:42,618] [pool-1-thread-10] Initializing /data/public/NIH/newsirp_final_XML.nii:
[testng] [2024-06-14 02:47:42,641] [pool-1-thread-11] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_26_conf_91.hdr:
[testng] [2024-06-14 02:47:42,651] [pool-1-thread-6] Initializing /data/public/NIH/zstat1.nii.gz:
[testng] [2024-06-14 02:47:42,716] [pool-1-thread-2] Initializing /data/public/NIH/avg152T1_LR_nifti.hdr:
[testng] [2024-06-14 02:47:42,727] [pool-1-thread-3] Initializing /data/public/NIH/avg152T1_RL_nifti.hdr:
[testng] [2024-06-14 02:47:42,741] [pool-1-thread-5] Initializing /data/public/NIH/minimal.hdr:
[testng] [2024-06-14 02:47:42,750] [pool-1-thread-9] Initializing /data/public/NIH/avg152T1_RL_nifti.nii:
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 1060, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 45 seconds
Finished: SUCCESS