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From Justin Zhang <justinzhang...@gmail.com>
Subject Re: corresponding versions ctakes and stakes-resource
Date Wed, 15 Jul 2015 14:15:09 GMT
Hello Akhilesh,

Thank you for quick response.

What is the link to download 3.2.2-SNAPSHOT? and What version of ctakes
resource did you use?


Is it different from
https://www.apache.org/dist/ctakes/ctakes-3.2.2/apache-ctakes-3.2.2-bin.tar.gz
?

I tried this one and with ctakes resource 3.2.1.1. It did not for these 3
pipelines.

Justin


On Wed, Jul 15, 2015 at 9:03 AM, Akhilesh Patel <
akhilesh.patel@citiustech.com> wrote:

> Hi Justin,
>
>
>
> I have not worked on smoking status however  I am able to capture “Side
> effects” and “Drug annotation” information from clinical notes. Both the
> module working form me.
>
> I am using following xml files to extract the information
>
>
>
>        <delegateAnalysisEngine key=*"DrugMentionAnnotator"*>
>
>          <import location=
> *"../../ctakes/ctakes-drug-ner/desc/analysis_engine/DrugMentionAnnotator.xml"*
> />
>
>        </delegateAnalysisEngine>
>
>
>
> <delegateAnalysisEngine key=*"SideEffect"*>
>
> <import location=
> *"../../ctakes/ctakes-side-effect/desc/analysis_engine/SideEffectAggregateTAE.xml"*
> />
>
> </delegateAnalysisEngine>
>
>
>
> Ctakes version I am using is 3.2.2-SNAPSHOT.
>
>
>
> Thanks,
>
> Akhilesh
>
>
>
> *From:* Justin Zhang [mailto:justinzhang.xl@gmail.com]
> *Sent:* Wednesday, July 15, 2015 7:22 PM
> *To:* user@ctakes.apache.org
> *Subject:* Re: corresponding versions ctakes and stakes-resource
>
>
>
> Hello again,
>
> For the same purpose as the first email: I have put a lot of efforts in
> order to run this few pipelines with different versions ctakes/resources
> and different computer systems, and did not succeed. Most errors are "URIs"
> or "File (xml) not found".
>
> I am so eager to move forward. Could anyone help me through the steps for
> "Smoking Status", and then "Side effects"/"Drug Annotations"? I would need
> the information of specific ctakes binary version and correct match
> resources, and relevant necessary steps.
>
> Great appreciation!!!
>
> Justin
>
>
>
> On Tue, Jul 14, 2015 at 4:04 PM, Justin Zhang <justinzhang.xl@gmail.com>
> wrote:
>
> Hello Everyone,
>
>
>
> I am looking to load following AE (analysis engine) from runctakesCVD.sh
>
>
>
> ·  <cTAKES_HOME>/desc/ctakes-smoking-status/desc/analysis_engine/SimulatedProdSmokingTAE.xml
> (The annotator to obtain document or patient-level smoking status)
>
> ·  <cTAKES_HOME>/desc/ctakes-side-effect/desc/analysis_engine/SideEffectAggregateTAE_UMLS.xml
> (The annotator to find side effect mentions and sentences from clinical
> documents)
>
> ·  <cTAKES_HOME>/desc/ctakes-drug-ner/desc/analysis_engine/DrugAggregatePlaintextUMLSProcesor.xml
> (The annotator to obtain drug annotations)
>
>
>
> What corresponding ctakes binary and ctakes resource should I use?
>
>
>
> In download page, current resource versions are 3.0.1, 3.10, 3.13, 3.2.0,
> 3.2.1.1
>
>
>
> current ctakes versions are 3.1.0, 3.1.1, 3.2.0, 3.2.1, 3.2.2
>
>
>
> thanks,
>
>
>
> --
>
> Justin
>
>
>
>
> --
>
> Justin
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-- 
Justin

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