[
https://issues.apache.org/jira/browse/CTAKES-314?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=14167522#comment-14167522
]
jay vyas edited comment on CTAKES-314 at 10/10/14 9:14 PM:
-----------------------------------------------------------
[[email protected]] Okay, finally got it ported into scala for
the spark jobs... Just one tiny error ! It involves a "URI is not
hierarchical" exception. any thoughts? This is w/ ctakes 3.2.0.
{noformat}
def main(args: Array[String]) {
val aed:AnalysisEngineDescription =
org.apache.ctakes.clinicalpipeline.ClinicalPipelineFactory.getTokenProcessingPipeline();
val jcas:JCas = JCasFactory.createJCas();
jcas.setDocumentText("My arthritis in my knee is flaring up. ");
SimplePipeline.runPipeline(jcas, aed);
//Print out the tokens and Parts of Speech
val iter = {
JCasUtil.select(jcas, classOf[BaseToken]).iterator()
}
while(iter.hasNext){
val entity = iter.next();
System.out.println("Token: " + entity.toString);
}
}
{noformat}
{noformat}
Exception in thread "main" java.lang.IllegalArgumentException: URI is not
hierarchical
at java.io.File.<init>(File.java:418)
at
org.apache.ctakes.lvg.ae.LvgAnnotator.createAnnotatorDescription(LvgAnnotator.java:565)
at
org.apache.ctakes.clinicalpipeline.ClinicalPipelineFactory.getTokenProcessingPipeline(ClinicalPipelineFactory.java:78)
at
org.apache.ctakes.clinicalpipeline.ClinicalPipelineFactory.getDefaultPipeline(ClinicalPipelineFactory.java:58)
at sparkapps.CTakesExample$.main(CTakesExample.scala:19)
at sparkapps.CTakesExample.main(CTakesExample.scala)
at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at
sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:57)
at
sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
at java.lang.reflect.Method.invoke(Method.java:606)
at com.intellij.rt.execution.application.AppMain.main(AppMain.java:134)
{noformat}
was (Author: jayunit100):
[[email protected]] Okay, finally got it ported into scala for
the spark jobs... Just one tiny error ! It involves a "URI is not
hierarchical" exception. any thoughts?
{noformat}
def main(args: Array[String]) {
val aed:AnalysisEngineDescription =
org.apache.ctakes.clinicalpipeline.ClinicalPipelineFactory.getTokenProcessingPipeline();
val jcas:JCas = JCasFactory.createJCas();
jcas.setDocumentText("My arthritis in my knee is flaring up. ");
SimplePipeline.runPipeline(jcas, aed);
//Print out the tokens and Parts of Speech
val iter = {
JCasUtil.select(jcas, classOf[BaseToken]).iterator()
}
while(iter.hasNext){
val entity = iter.next();
System.out.println("Token: " + entity.toString);
}
}
{noformat}
{noformat}
Exception in thread "main" java.lang.IllegalArgumentException: URI is not
hierarchical
at java.io.File.<init>(File.java:418)
at
org.apache.ctakes.lvg.ae.LvgAnnotator.createAnnotatorDescription(LvgAnnotator.java:565)
at
org.apache.ctakes.clinicalpipeline.ClinicalPipelineFactory.getTokenProcessingPipeline(ClinicalPipelineFactory.java:78)
at
org.apache.ctakes.clinicalpipeline.ClinicalPipelineFactory.getDefaultPipeline(ClinicalPipelineFactory.java:58)
at sparkapps.CTakesExample$.main(CTakesExample.scala:19)
at sparkapps.CTakesExample.main(CTakesExample.scala)
at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at
sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:57)
at
sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
at java.lang.reflect.Method.invoke(Method.java:606)
at com.intellij.rt.execution.application.AppMain.main(AppMain.java:134)
{noformat}
> BigTop/Hadoop cTAKES integration
> --------------------------------
>
> Key: CTAKES-314
> URL: https://issues.apache.org/jira/browse/CTAKES-314
> Project: cTAKES
> Issue Type: New Feature
> Affects Versions: 3.2.0
> Reporter: Pei Chen
> Fix For: 3.2.3
>
> Attachments: Napkin_cTAKES_Hadoop.JPG
>
>
> Placeholder to-
> Create a simple application that can take in different datasources (public
> forums, twitter, etc.), scale up cTAKES using BigTop/Hadoop ecosystem.
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