See
<https://builds.apache.org/job/ctakes-trunk-compiletest/1166/display/redirect?page=changes>
Changes:
[seanfinan] CTAKES-491 : simple fhir.
[seanfinan] CTAKES-491 : simple fhir.
------------------------------------------
[...truncated 803.34 KB...]
confidence: 0.0
polarity: 0
uncertainty: 0
conditional: false
generic: false
subject: <null>
historyOf: 0
originalText: <null>
date: <null>
time: <null>
timeClass: "DATE"
role: "Arg1"
participatesIn: <null>
RelationArgument
id: 0
argument: EventMention
sofa: _InitialView
begin: 67
end: 76
id: 0
ontologyConceptArr: <null>
typeID: 0
segmentID: <null>
sentenceID: <null>
discoveryTechnique: 0
confidence: 1.3807402
polarity: 0
uncertainty: 0
conditional: false
generic: false
subject: <null>
historyOf: 0
originalText: <null>
event: Event
id: 0
ontologyConcept: <null>
mentions: <null>
discoveryTechnique: 0
confidence: 0.0
conditional: false
generic: false
subject: <null>
polarity: 0
uncertainty: 0
historyOf: 0
properties: EventProperties
contextualModality: <null>
contextualAspect: <null>
permanence: <null>
category: <null>
aspect: <null>
docTimeRel: <null>
degree: <null>
polarity: 0
role: "Arg2"
participatesIn: <null>
Category: CONTAINS
Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 22.088 sec
Running org.apache.ctakes.temporal.ae.BackwardsTimeAnnotatorTest
18 Jan 2018 22:58:41 INFO LvgAnnotator - URL for lvg.properties
=<https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-lvg-res/target/classes/org/apache/ctakes/lvg/data/config/lvg.properties>
18 Jan 2018 22:58:43 INFO SentenceDetector - Sentence detector model file:
org/apache/ctakes/core/sentdetect/sd-med-model.zip
18 Jan 2018 22:58:43 INFO TokenizerAnnotatorPTB - Initializing
org.apache.ctakes.core.ae.TokenizerAnnotatorPTB
18 Jan 2018 22:58:43 INFO LvgCmdApiResourceImpl - Loading NLM Norm and Lvg
with config file =
<https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-lvg-res/target/classes/org/apache/ctakes/lvg/data/config/lvg.properties>
18 Jan 2018 22:58:43 INFO LvgCmdApiResourceImpl - config file absolute path
=
<https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-temporal/file>:<https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-lvg-res/target/classes/org/apache/ctakes/lvg/data/config/lvg.properties>
18 Jan 2018 22:58:43 INFO LvgCmdApiResourceImpl - cwd =
<https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-temporal>
18 Jan 2018 22:58:43 INFO LvgCmdApiResourceImpl - cd
<https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-lvg-res/target/classes/org/apache/ctakes/lvg/>
** Configuration Error:
<https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-lvg-res/target/classes/org/apache/ctakes/lvg/data/config/lvg.properties>
(No such file or directory)
** Error: problem of opening/reading config file:
'<https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-lvg-res/target/classes/org/apache/ctakes/lvg/data/config/lvg.properties'.>
Use -x option to specify the config file path.
** Configuration Error:
<https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-lvg-res/target/classes/org/apache/ctakes/lvg/data/config/lvg.properties>
(No such file or directory)
** Error: problem of opening/reading config file:
'<https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-lvg-res/target/classes/org/apache/ctakes/lvg/data/config/lvg.properties'.>
Use -x option to specify the config file path.
18 Jan 2018 22:58:43 INFO LvgCmdApiResourceImpl - cd
<https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-temporal>
18 Jan 2018 22:58:43 INFO ContextDependentTokenizerAnnotator - Finite state
machines loaded.
18 Jan 2018 22:58:43 INFO POSTagger - POS tagger model file:
org/apache/ctakes/postagger/models/mayo-pos.zip
Loading configuration.
Loading feature templates.
Loading lexica.
Loading model:
........................................................................................
18 Jan 2018 22:58:56 INFO ClearNLPDependencyParserAE - Initializing ClearNLP
dependency parser, using lemmatizer: true
18 Jan 2018 22:58:56 INFO BackwardsTimeAnnotator - Initializing ...
.
18 Jan 2018 22:58:56 INFO BackwardsTimeAnnotator - Finished.
18 Jan 2018 22:58:57 INFO SentenceDetector - Starting processing.
18 Jan 2018 22:58:57 INFO TokenizerAnnotatorPTB - process(JCas) in
org.apache.ctakes.core.ae.TokenizerAnnotatorPTB
18 Jan 2018 22:58:57 INFO LvgAnnotator - process(JCas)
18 Jan 2018 22:58:57 INFO ContextDependentTokenizerAnnotator - process(JCas)
18 Jan 2018 22:58:57 INFO POSTagger - process(JCas)
18 Jan 2018 22:58:57 INFO ClearNLPDependencyParserAE - Dependency parser
starting with thread:main
18 Jan 2018 22:58:57 INFO ClearNLPDependencyParserAE - Dependency parser
ending with thread:main
18 Jan 2018 22:58:57 INFO BackwardsTimeAnnotatorTest - Time: recently
18 Jan 2018 22:58:57 INFO BackwardsTimeAnnotatorTest - Time class: DATE
18 Jan 2018 22:58:57 INFO BackwardsTimeAnnotatorTest - Time: until 6 months ago
18 Jan 2018 22:58:57 INFO BackwardsTimeAnnotatorTest - Time class: DATE
Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 16.3 sec
Running org.apache.ctakes.temporal.ae.EventAnnotatorTest
18 Jan 2018 22:58:58 INFO LvgAnnotator - URL for lvg.properties
=<https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-lvg-res/target/classes/org/apache/ctakes/lvg/data/config/lvg.properties>
18 Jan 2018 22:58:59 INFO SentenceDetector - Sentence detector model file:
org/apache/ctakes/core/sentdetect/sd-med-model.zip
18 Jan 2018 22:58:59 INFO TokenizerAnnotatorPTB - Initializing
org.apache.ctakes.core.ae.TokenizerAnnotatorPTB
18 Jan 2018 22:58:59 INFO LvgCmdApiResourceImpl - Loading NLM Norm and Lvg
with config file =
<https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-lvg-res/target/classes/org/apache/ctakes/lvg/data/config/lvg.properties>
18 Jan 2018 22:58:59 INFO LvgCmdApiResourceImpl - config file absolute path
=
<https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-temporal/file>:<https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-lvg-res/target/classes/org/apache/ctakes/lvg/data/config/lvg.properties>
18 Jan 2018 22:58:59 INFO LvgCmdApiResourceImpl - cwd =
<https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-temporal>
18 Jan 2018 22:58:59 INFO LvgCmdApiResourceImpl - cd
<https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-lvg-res/target/classes/org/apache/ctakes/lvg/>
** Configuration Error:
<https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-lvg-res/target/classes/org/apache/ctakes/lvg/data/config/lvg.properties>
(No such file or directory)
** Error: problem of opening/reading config file:
'<https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-lvg-res/target/classes/org/apache/ctakes/lvg/data/config/lvg.properties'.>
Use -x option to specify the config file path.
** Configuration Error:
<https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-lvg-res/target/classes/org/apache/ctakes/lvg/data/config/lvg.properties>
(No such file or directory)
** Error: problem of opening/reading config file:
'<https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-lvg-res/target/classes/org/apache/ctakes/lvg/data/config/lvg.properties'.>
Use -x option to specify the config file path.
18 Jan 2018 22:58:59 INFO LvgCmdApiResourceImpl - cd
<https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-temporal>
18 Jan 2018 22:58:59 INFO ContextDependentTokenizerAnnotator - Finite state
machines loaded.
18 Jan 2018 22:58:59 INFO POSTagger - POS tagger model file:
org/apache/ctakes/postagger/models/mayo-pos.zip
Loading configuration.
Loading feature templates.
Loading lexica.
Loading model:
....................
Results :
Tests run: 4, Failures: 0, Errors: 0, Skipped: 0
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[INFO] ------------------------------------------------------------------------
[INFO] Reactor Summary:
[INFO]
[INFO] Apache cTAKES ..................................... SUCCESS [5.515s]
[INFO] ctakes-gui-res .................................... SUCCESS [5.784s]
[INFO] Apache cTAKES Resources coreference ............... SUCCESS [2.442s]
[INFO] Apache cTAKES Resources temporal .................. SUCCESS [2.889s]
[INFO] Apache cTAKES Resources relation-extractor ........ SUCCESS [2.497s]
[INFO] Apache cTAKES Resources dictionary-lookup-fast-res SUCCESS [4.919s]
[INFO] Apache cTAKES Resources core ...................... SUCCESS [2.304s]
[INFO] Apache cTAKES common type system .................. SUCCESS [14.098s]
[INFO] Apache cTAKES utils ............................... SUCCESS [6.282s]
[INFO] Apache cTAKES core ................................ SUCCESS [1:14.346s]
[INFO] Apache cTAKES dictionary lookup fast .............. SUCCESS [4.572s]
[INFO] Apache cTAKES document preprocessor ............... SUCCESS [4.200s]
[INFO] Apache cTAKES Resources lvg ....................... SUCCESS [38.337s]
[INFO] Apache cTAKES LVG lexical tools ................... SUCCESS [6.688s]
[INFO] Apache cTAKES Resources ne-contexts ............... SUCCESS [2.422s]
[INFO] Apache cTAKES named entity contexts ............... SUCCESS [5.411s]
[INFO] Apache cTAKES Resources assertion ................. SUCCESS [2.787s]
[INFO] Apache cTAKES Resources constituency-parser ....... SUCCESS [2.612s]
[INFO] Apache cTAKES Constituency Parser ................. SUCCESS [4.677s]
[INFO] Apache cTAKES Resources dependency-parser ......... SUCCESS [2.780s]
[INFO] Apache cTAKES Resources pos-tagger ................ SUCCESS [2.500s]
[INFO] Apache cTAKES part-of-speech tagger ............... SUCCESS [7.171s]
[INFO] Apache cTAKES Dependency Parser ................... SUCCESS [53.680s]
[INFO] Apache cTAKES context dependent tokenizer ......... SUCCESS [5.981s]
[INFO] Apache cTAKES Resources ctakes-chunker-res ........ SUCCESS [2.329s]
[INFO] Apache cTAKES chunker ............................. SUCCESS [3.685s]
[INFO] Apache cTAKES Assertion ........................... SUCCESS [6.241s]
[INFO] ctakes-clinical-pipeline-res ...................... SUCCESS [2.426s]
[INFO] Apache cTAKES ctakes-clinical-pipeline ............ SUCCESS [5.643s]
[INFO] Apache cTAKES Relation Extractor .................. SUCCESS [11.831s]
[INFO] Apache cTAKES Temporal Information Extraction ..... FAILURE [15:15.363s]
[INFO] Apache cTAKES CoReference Resolver ................ SKIPPED
[INFO] ctakes-gui ........................................ SKIPPED
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[INFO] Apache cTAKES Resources drug-ner .................. SKIPPED
[INFO] Apache cTAKES Drug NER ............................ SKIPPED
[INFO] Apache cTAKES Resources side-effect ............... SKIPPED
[INFO] Apache cTAKES Side Effects ........................ SKIPPED
[INFO] Apache cTAKES Resources smoking-status ............ SKIPPED
[INFO] Apache cTAKES Smoking Status ...................... SKIPPED
[INFO] Apache cTAKES Resources assertion-zoner ........... SKIPPED
[INFO] Apache cTAKES Assertion's zoner ................... SKIPPED
[INFO] ctakes-examples-res ............................... SKIPPED
[INFO] ctakes-examples ................................... SKIPPED
[INFO] Apache cTAKES Resources ctakes-ytex-res ........... SKIPPED
[INFO] Apache cTAKES YTEX ................................ SKIPPED
[INFO] Apache cTAKES YTEX UIMA ........................... SKIPPED
[INFO] Apache cTAKES YTEX Web ............................ SKIPPED
[INFO] Apache cTAKES Distribution ........................ SKIPPED
[INFO] Apache cTAKES Regression-test ..................... SKIPPED
[INFO] Apache cTAKES template filler ..................... SKIPPED
[INFO] ------------------------------------------------------------------------
[INFO] BUILD FAILURE
[INFO] ------------------------------------------------------------------------
[INFO] Total time: 20:54.436s
[INFO] Finished at: Thu Jan 18 23:12:19 UTC 2018
[INFO] Final Memory: 92M/1509M
[INFO] ------------------------------------------------------------------------
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[ERROR] Failed to execute goal
org.apache.maven.plugins:maven-surefire-plugin:2.12.1:test (default-test) on
project ctakes-temporal: Failure or timeout -> [Help 1]
[ERROR]
[ERROR] To see the full stack trace of the errors, re-run Maven with the -e
switch.
[ERROR] Re-run Maven using the -X switch to enable full debug logging.
[ERROR]
[ERROR] For more information about the errors and possible solutions, please
read the following articles:
[ERROR] [Help 1]
http://cwiki.apache.org/confluence/display/MAVEN/MojoExecutionException
[ERROR]
[ERROR] After correcting the problems, you can resume the build with the command
[ERROR] mvn <goals> -rf :ctakes-temporal
Sending e-mails to: [email protected]
channel stopped
[ctakes-trunk-compiletest] $ /bin/bash -xe /tmp/jenkins5486064746810759855.sh
+ rm -fr '/tmp/ctakes-*'
