ctakes-notifications mailing list archives

Site index · List index
Message view « Date » · « Thread »
Top « Date » · « Thread »
From "mlyNLP (JIRA)" <j...@apache.org>
Subject [jira] [Commented] (CTAKES-490) cTAKES 4.0.1-SNAPSHOT - Problem with CVD and AggregatePlaintextFastUMLSProcessor
Date Sat, 16 Dec 2017 15:39:00 GMT

    [ https://issues.apache.org/jira/browse/CTAKES-490?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=16293848#comment-16293848
] 

mlyNLP commented on CTAKES-490:
-------------------------------

Hello Alex,

By changing '<import name...' to '<import location...' and passing the absolute path
instead of the relative path, solved the problem for me now. But this shouldn't be the final
fix of this problem.

This change made me solve the problem of the JIRA, but right after I have another error that
consists in the following: 

*<message>Annotator class "org.apache.ctakes.drugner.ae.DrugMentionAnnotator" was not
found. (Descriptor: file:/C:/Users/Xxxxx/Desktop/Yyyyy/cTAKES_Project_NLP_Dev/ctakes/ctakes-drug-ner/desc/analysis_engine/DrugMentionAnnotator.xml)</message>
  <exception>
    <message>org.apache.uima.resource.ResourceInitializationException: Annotator class
"org.apache.ctakes.drugner.ae.DrugMentionAnnotator" was not found. (Descriptor: file:/C:/Users/Xxxxx/Desktop/Yyyyy/cTAKES_Project_NLP_Dev/ctakes/ctakes-drug-ner/desc/analysis_engine/DrugMentionAnnotator.xml)</message>
*

Once again, the class DrugMentionAnnotator being referenced in the DrugMentionAnnotator.xml
physically exists in the given path! This time, even passing the absolute path, I can't seem
to solve the problem.

If you have some advice in how I can solve this new problem I would be appreciated. 

Thanks in advance.

> cTAKES 4.0.1-SNAPSHOT - Problem with CVD and AggregatePlaintextFastUMLSProcessor
> --------------------------------------------------------------------------------
>
>                 Key: CTAKES-490
>                 URL: https://issues.apache.org/jira/browse/CTAKES-490
>             Project: cTAKES
>          Issue Type: Bug
>          Components: ctakes-clinical-pipeline
>    Affects Versions: 4.0.0
>         Environment: Local
>            Reporter: mlyNLP
>            Assignee: Alex Zbarcea
>             Fix For: 4.0.0
>
>         Attachments: Problem_ProofOne.JPG, Problem_ProofThree.JPG, Problem_ProofTwo.JPG
>
>
> Hello,
> I'm aiming to extend cTAKES in order to fulfill the objectives of a project I'm working
on. So I decided to check out the code of trunk. I followed all the steps of the developer's
guide found here: https://cwiki.apache.org/confluence/display/CTAKES/cTAKES+4.0+Developer+Install+Guide
> I'm using Intellij by the way. Well, when I launch CVD from Intellij in order to test
some changes I made in the code, I have a problem. I want to use the AggregatePlaintextFastUMLSProcessor.
When I try to load it in the CVD UI, I have the following error:
> -----------------
>  
>   <exception>
>     <message>org.apache.uima.resource.ResourceInitializationException: An import
could not be resolved.  No file with name "org/apache/ctakes/drugner/types/TypeSystem.xml"
was found in the class path or data path. (Descriptor: file:/C:/Users/User/Desktop/Tese_Mestrado_NLP/cTAKES_Project_NLP_Dev/ctakes/ctakes-drug-ner/desc/analysis_engine/DrugMentionAnnotator.xml)
> -----------------
> I can't understand why this exception happens at all. The DrugMentionAnnotator.xml indeed
has an import of the TypeSystem.xml file. And this TypeSystem.xml file physically exists in
the path described in the DrugMentionAnnotator.xml import. So, I don't really know why I have
this error in CVD, since the file that is originating the problem exists indeed in the expectable
path described in the DrugMentionAnnotator.xml import.
> I also add images as attachments that show the import in the DrugMentionAnnotator.xml
and the proof that the file being imported (and the cause of the exception) actually exists
where it should exist.
> Since I have followed all the steps in the Developer's Guide, I consider this to be a
problem and decided to report it. I'm also blocked at the moment because of it.
> If you need additional information don't hesitate in demanding.
> *Expected result:* load AggregatePlaintextFastUMLSProcessor succesfully.
> *Obtained result:* loading AggregatePlaintextFastUMLSProcessor raises an exception.



--
This message was sent by Atlassian JIRA
(v6.4.14#64029)

Mime
View raw message