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From Apache Jenkins Server <jenk...@builds.apache.org>
Subject Build failed in Jenkins: cTAKES-trunk-Java-1.8 #9
Date Mon, 02 Oct 2017 21:40:01 GMT
See <https://builds.apache.org/job/cTAKES-trunk-Java-1.8/9/display/redirect?page=changes>

Changes:

[seanfinan] ConstituencyParser add dot logging since initialization can take several seconds
TreeUtils added getTerminals(..) that accepts BaseTokens
MaxEntParserWrapper use uimafit index map instead of double select for speed
MarkableSalienceAnnotator added start, finish logging
MentionCluster.. added start, finish logging; still waiting on notYetProcess(jCas)

------------------------------------------
[...truncated 1.05 MB...]
log4j: Threshold ="null".
log4j: Retreiving an instance of org.apache.log4j.Logger.
log4j: Setting [ProgressAppender] additivity to [false].
log4j: Level value for ProgressAppender is  [INFO].
log4j: ProgressAppender level set to INFO
log4j: Class name: [org.apache.log4j.ConsoleAppender]
log4j: Parsing layout of class: "org.apache.log4j.PatternLayout"
log4j: Setting property [conversionPattern] to [%m].
log4j: Adding appender named [noEolAppender] to category [ProgressAppender].
log4j: Retreiving an instance of org.apache.log4j.Logger.
log4j: Setting [ProgressDone] additivity to [false].
log4j: Level value for ProgressDone is  [INFO].
log4j: ProgressDone level set to INFO
log4j: Class name: [org.apache.log4j.ConsoleAppender]
log4j: Parsing layout of class: "org.apache.log4j.PatternLayout"
log4j: Setting property [conversionPattern] to [%m%n].
log4j: Adding appender named [eolAppender] to category [ProgressDone].
log4j: Level value for root is  [INFO].
log4j: root level set to INFO
log4j: Class name: [org.apache.log4j.ConsoleAppender]
log4j: Parsing layout of class: "org.apache.log4j.PatternLayout"
log4j: Setting property [conversionPattern] to [%d{dd MMM yyyy HH:mm:ss} %5p %c{1} - %m%n].
log4j: Adding appender named [consoleAppender] to category [root].
02 Oct 2017 21:38:47  INFO RegressionPipelineTest - Creating directory: testdata/generatedoutput/RegressionPipelineCPETest
02 Oct 2017 21:38:47  INFO RegressionPipelineTest - Parsing CPE Descriptor:RegressionPipelineCPETest.xml
02 Oct 2017 21:38:48  INFO Chunker - Chunker model file: org/apache/ctakes/chunker/models/chunker-model.zip
02 Oct 2017 21:38:50  INFO ContextAnnotator - Using left , right scope sizes: 7 , 7
02 Oct 2017 21:38:50  INFO ContextAnnotator - Using scope order: LEFT,RIGHT
02 Oct 2017 21:38:50  INFO ContextAnnotator - SCOPE ORDER: [1, 3]
02 Oct 2017 21:38:50  INFO ContextAnnotator - Using context analyzer: org.apache.ctakes.necontexts.negation.NegationContextAnalyzer
02 Oct 2017 21:38:50  INFO NegationContextAnalyzer - initBoundaryData() called for ContextInitializer
02 Oct 2017 21:38:50  INFO ContextAnnotator - Using context consumer: org.apache.ctakes.necontexts.negation.NegationContextHitConsumer
02 Oct 2017 21:38:50  INFO ContextAnnotator - Using lookup window type: org.apache.ctakes.typesystem.type.textspan.Sentence
02 Oct 2017 21:38:50  INFO ContextAnnotator - Using focus type: org.apache.ctakes.typesystem.type.textsem.IdentifiedAnnotation
02 Oct 2017 21:38:50  INFO ContextAnnotator - Using context type: org.apache.ctakes.typesystem.type.syntax.BaseToken
02 Oct 2017 21:38:50  INFO SentenceDetector - Sentence detector model file: org/apache/ctakes/core/sentdetect/sd-med-model.zip
02 Oct 2017 21:38:50  INFO TokenizerAnnotatorPTB - Initializing org.apache.ctakes.core.ae.TokenizerAnnotatorPTB
02 Oct 2017 21:38:50  INFO POSTagger - POS tagger model file: org/apache/ctakes/postagger/models/mayo-pos.zip
02 Oct 2017 21:38:51  INFO ContextAnnotator - Using left , right scope sizes: 10 , 10
02 Oct 2017 21:38:51  INFO ContextAnnotator - Using scope order: LEFT,RIGHT
02 Oct 2017 21:38:51  INFO ContextAnnotator - SCOPE ORDER: [1, 3]
02 Oct 2017 21:38:51  INFO ContextAnnotator - Using context analyzer: org.apache.ctakes.necontexts.status.StatusContextAnalyzer
02 Oct 2017 21:38:51  INFO StatusContextAnalyzer - initBoundaryData() called for ContextInitializer
02 Oct 2017 21:38:51  INFO ContextAnnotator - Using context consumer: org.apache.ctakes.necontexts.status.StatusContextHitConsumer
02 Oct 2017 21:38:51  INFO ContextAnnotator - Using lookup window type: org.apache.ctakes.typesystem.type.textspan.Sentence
02 Oct 2017 21:38:51  INFO ContextAnnotator - Using focus type: org.apache.ctakes.typesystem.type.textsem.IdentifiedAnnotation
02 Oct 2017 21:38:51  INFO ContextAnnotator - Using context type: org.apache.ctakes.typesystem.type.syntax.BaseToken
02 Oct 2017 21:38:51  INFO ContextDependentTokenizerAnnotator - Finite state machines loaded.
02 Oct 2017 21:38:51  INFO AbstractJCasTermAnnotator - Using dictionary lookup window type:
org.apache.ctakes.typesystem.type.textspan.Sentence
02 Oct 2017 21:38:51  INFO AbstractJCasTermAnnotator - Exclusion tagset loaded: CC CD DT EX
IN LS MD PDT POS PP PP$ PRP PRP$ RP TO VB VBD VBG VBN VBP VBZ WDT WP WPS WRB 
02 Oct 2017 21:38:51  INFO AbstractJCasTermAnnotator - Using minimum term text span: 3
02 Oct 2017 21:38:51  INFO AbstractJCasTermAnnotator - Using Dictionary Descriptor: org/apache/ctakes/dictionary/lookup/fast/sno_rx_16ab.xml
02 Oct 2017 21:38:51  INFO DictionaryDescriptorParser - Parsing dictionary specifications:

02 Oct 2017 21:38:51 ERROR UmlsUserApprover -   User CHANGE_ME not allowed.  It is a placeholder
reminder.
02 Oct 2017 21:38:51 ERROR UmlsUserApprover -    Verify that you are setting command-line
option --user or ctakes property umlsUser or environment variable ctakes.umlsuser properly.
Tests run: 1, Failures: 0, Errors: 1, Skipped: 0, Time elapsed: 4.15 sec <<< FAILURE!

Results :

Tests in error: 
  testCPE(org.apache.ctakes.regression.test.RegressionPipelineTest): Initialization of CAS
Processor with name "RegressionPipelineAggregateTest" failed.  

Tests run: 1, Failures: 0, Errors: 1, Skipped: 0

[JENKINS] Recording test results
[JENKINS] Archiving disabled
[INFO] 
[INFO] ------------------------------------------------------------------------
[INFO] Building Apache cTAKES template filler 4.0.1-SNAPSHOT
[INFO] ------------------------------------------------------------------------
[INFO] 
[INFO] --- maven-clean-plugin:2.4.1:clean (default-clean) @ ctakes-template-filler ---
[INFO] 
[INFO] --- maven-remote-resources-plugin:1.4:process (default) @ ctakes-template-filler ---
[INFO] 
[INFO] --- maven-resources-plugin:2.5:resources (default-resources) @ ctakes-template-filler
---
[debug] execute contextualize
[INFO] Using 'UTF-8' encoding to copy filtered resources.
[INFO] Copying 0 resource
[INFO] Copying 3 resources
[INFO] 
[INFO] --- maven-compiler-plugin:2.4:compile (default-compile) @ ctakes-template-filler ---
[INFO] Compiling 1 source file to <https://builds.apache.org/job/cTAKES-trunk-Java-1.8/ws/ctakes-template-filler/target/classes>
[INFO] 
[INFO] --- maven-resources-plugin:2.5:testResources (default-testResources) @ ctakes-template-filler
---
[debug] execute contextualize
[INFO] Using 'UTF-8' encoding to copy filtered resources.
[INFO] Copying 0 resource
[INFO] Copying 3 resources
[INFO] 
[INFO] --- maven-compiler-plugin:2.4:testCompile (default-testCompile) @ ctakes-template-filler
---
[INFO] Nothing to compile - all classes are up to date
[INFO] 
[INFO] --- maven-surefire-plugin:2.12.1:test (default-test) @ ctakes-template-filler ---
[INFO] Surefire report directory: <https://builds.apache.org/job/cTAKES-trunk-Java-1.8/ws/ctakes-template-filler/target/surefire-reports>

-------------------------------------------------------
 T E S T S
-------------------------------------------------------

Results :

Tests run: 0, Failures: 0, Errors: 0, Skipped: 0

[JENKINS] Recording test results
[INFO] 
[INFO] --- maven-jar-plugin:2.4:jar (default-jar) @ ctakes-template-filler ---
[INFO] Building jar: <https://builds.apache.org/job/cTAKES-trunk-Java-1.8/ws/ctakes-template-filler/target/ctakes-template-filler-4.0.1-SNAPSHOT.jar>
[INFO] 
[INFO] --- maven-site-plugin:3.1:attach-descriptor (attach-descriptor) @ ctakes-template-filler
---
[INFO] 
[INFO] --- maven-install-plugin:2.3.1:install (default-install) @ ctakes-template-filler ---
[INFO] Installing <https://builds.apache.org/job/cTAKES-trunk-Java-1.8/ws/ctakes-template-filler/target/ctakes-template-filler-4.0.1-SNAPSHOT.jar>
to /home/jenkins/jenkins-slave/maven-repositories/0/org/apache/ctakes/ctakes-template-filler/4.0.1-SNAPSHOT/ctakes-template-filler-4.0.1-SNAPSHOT.jar
[INFO] Installing <https://builds.apache.org/job/cTAKES-trunk-Java-1.8/ws/ctakes-template-filler/pom.xml>
to /home/jenkins/jenkins-slave/maven-repositories/0/org/apache/ctakes/ctakes-template-filler/4.0.1-SNAPSHOT/ctakes-template-filler-4.0.1-SNAPSHOT.pom
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[INFO] ------------------------------------------------------------------------
[INFO] Reactor Summary:
[INFO] 
[INFO] Apache cTAKES ...................................... SUCCESS [  5.589 s]
[INFO] ctakes-gui-res ..................................... SUCCESS [  5.279 s]
[INFO] Apache cTAKES Resources core ....................... SUCCESS [  2.599 s]
[INFO] Apache cTAKES common type system ................... SUCCESS [  9.147 s]
[INFO] Apache cTAKES utils ................................ SUCCESS [  4.242 s]
[INFO] Apache cTAKES core ................................. SUCCESS [ 25.138 s]
[INFO] ctakes-gui ......................................... SUCCESS [  4.619 s]
[INFO] Apache cTAKES Resources pos-tagger ................. SUCCESS [  3.238 s]
[INFO] Apache cTAKES part-of-speech tagger ................ SUCCESS [  5.654 s]
[INFO] Apache cTAKES Resources ctakes-chunker-res ......... SUCCESS [  3.197 s]
[INFO] Apache cTAKES chunker .............................. SUCCESS [  3.454 s]
[INFO] Apache cTAKES document preprocessor ................ SUCCESS [  3.905 s]
[INFO] Apache cTAKES Resources dictionary-lookup .......... SUCCESS [ 19.368 s]
[INFO] Apache cTAKES dictionary lookup .................... SUCCESS [  4.622 s]
[INFO] Apache cTAKES context dependent tokenizer .......... SUCCESS [  5.050 s]
[INFO] Apache cTAKES Resources lvg ........................ SUCCESS [ 45.047 s]
[INFO] Apache cTAKES LVG lexical tools .................... SUCCESS [  6.580 s]
[INFO] Apache cTAKES Resources ne-contexts ................ SUCCESS [  2.372 s]
[INFO] Apache cTAKES named entity contexts ................ SUCCESS [  4.971 s]
[INFO] Apache cTAKES Resources constituency-parser ........ SUCCESS [  4.677 s]
[INFO] Apache cTAKES Constituency Parser .................. SUCCESS [  3.307 s]
[INFO] Apache cTAKES Resources coreference ................ SUCCESS [  6.819 s]
[INFO] Apache cTAKES Resources temporal ................... SUCCESS [  2.848 s]
[INFO] Apache cTAKES Resources relation-extractor ......... SUCCESS [  2.475 s]
[INFO] Apache cTAKES Resources dictionary-lookup-fast-res . SUCCESS [  3.921 s]
[INFO] Apache cTAKES dictionary lookup fast ............... SUCCESS [  3.513 s]
[INFO] Apache cTAKES Resources assertion .................. SUCCESS [  4.299 s]
[INFO] Apache cTAKES Resources dependency-parser .......... SUCCESS [ 20.349 s]
[INFO] Apache cTAKES Dependency Parser .................... SUCCESS [ 44.892 s]
[INFO] Apache cTAKES Assertion ............................ SUCCESS [  6.451 s]
[INFO] ctakes-clinical-pipeline-res ....................... SUCCESS [  2.337 s]
[INFO] Apache cTAKES ctakes-clinical-pipeline ............. SUCCESS [  6.766 s]
[INFO] Apache cTAKES Relation Extractor ................... SUCCESS [ 10.601 s]
[INFO] Apache cTAKES Temporal Information Extraction ...... SUCCESS [02:13 min]
[INFO] Apache cTAKES CoReference Resolver ................. SUCCESS [  9.733 s]
[INFO] Apache cTAKES Resources drug-ner ................... SUCCESS [  2.781 s]
[INFO] Apache cTAKES Drug NER ............................. SUCCESS [  7.291 s]
[INFO] Apache cTAKES Resources side-effect ................ SUCCESS [  2.449 s]
[INFO] Apache cTAKES Side Effects ......................... SUCCESS [  6.395 s]
[INFO] Apache cTAKES Resources smoking-status ............. SUCCESS [  2.548 s]
[INFO] Apache cTAKES Smoking Status ....................... SUCCESS [  6.514 s]
[INFO] Apache cTAKES Resources assertion-zoner ............ SUCCESS [  2.573 s]
[INFO] Apache cTAKES Assertion's zoner .................... SUCCESS [  3.039 s]
[INFO] ctakes-examples-res ................................ SUCCESS [  2.416 s]
[INFO] ctakes-examples .................................... SUCCESS [  9.180 s]
[INFO] Apache cTAKES Resources ctakes-ytex-res ............ SUCCESS [  2.499 s]
[INFO] Apache cTAKES YTEX ................................. FAILURE [01:13 min]
[INFO] Apache cTAKES YTEX UIMA ............................ SKIPPED
[INFO] Apache cTAKES YTEX Web ............................. SKIPPED
[INFO] Apache cTAKES Distribution ......................... SKIPPED
[INFO] Apache cTAKES Regression-test ...................... FAILURE [ 11.552 s]
[INFO] Apache cTAKES template filler ...................... SUCCESS [  7.943 s]
[INFO] ------------------------------------------------------------------------
[INFO] BUILD FAILURE
[INFO] ------------------------------------------------------------------------
[INFO] Total time: 11:14 min
[INFO] Finished at: 2017-10-02T21:39:38Z
[INFO] Final Memory: 130M/1506M
[INFO] ------------------------------------------------------------------------
[ERROR] Failed to execute goal org.apache.maven.plugins:maven-surefire-plugin:2.12.1:test
(surefire-it) on project ctakes-ytex: There are test failures.
[ERROR] 
[ERROR] Please refer to <https://builds.apache.org/job/cTAKES-trunk-Java-1.8/ws/ctakes-ytex/target/surefire-reports>
for the individual test results.
[ERROR] -> [Help 1]
[ERROR] Failed to execute goal org.apache.maven.plugins:maven-surefire-plugin:2.12.1:test
(default-test) on project ctakes-regression-test: There are test failures.
[ERROR] 
[ERROR] Please refer to <https://builds.apache.org/job/cTAKES-trunk-Java-1.8/ws/ctakes-regression-test/target/surefire-reports>
for the individual test results.
[ERROR] -> [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/MojoFailureException
[ERROR] 
[ERROR] After correcting the problems, you can resume the build with the command
[ERROR]   mvn <goals> -rf :ctakes-ytex
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