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Questions tagged [ctakes]

Apache cTAKES is a natural language processing system for extraction of information from electronic medical record clinical free-text.

cTAKES is a natural language processing system for extraction of information from electronic medical record clinical free-text. Originally developed at the Mayo Clinic, it has expanded to being used by various institutions internationally.

The best way to get started with using cTAKES is to check out the Apache cTAKES confluence

Useful links:

Demos

Examples

Issue tracker

Mailing lists

46 questions
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Using java code in the django framework

Okay, so I have a simple interface that I designed with the Django framework that takes natural language input from a user and stores it in table. Additionally I have a pipeline that I built with Java using the cTAKES library to do named entity…
jdv12
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How to force cTAKES to put to store the UMLS in RAM?

I am processing a batch of documents using Apache cTAKES through the CPE Configurator. My pipeline includes UmlsDictionaryLookUpAnnotator. For each document, UmlsDictionaryLookUpAnnotator re-reads the UMLS from the hard drive. This results in…
Franck Dernoncourt
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Name Entity recognition using java

I want to implement a small and simple code to be able to extract a named entity from a small text. example: the user enters this sentence: Mr. Smith visited the hospital in New York for his asthma treatment and his cancer appointement. the result…
khaled djellal
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How to solve out of memory java error when you dont have the code?

I am running ctakes DictionaryBuilder on Windows 11 it is a Java application that comes with ctakes ( a medical tool) anyway, when I try to run this application I get this error I am just a user of this application and not a developer and I don't…
asmgx
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while invoking ctakes parser from tika-app getting exception

While invoking cTAKES parser from tika-app getting following: java -classpath $HOME/src/ctakes-config:${TIKA_HOME}/tika-app/target/tika-app-X.Y-SNAPSHOT.jar:${CTAKES_HOME}/desc:${CTAKES_HOME}/resources:${CTAKES_HOME}/lib/*…
blueiris
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Setup ctakes project with JSON output

I am trying to setup a ctakes application which gives a JSON output. I have taken the ctakes module from https://codeload.github.com/apache/ctakes/zip/ctakes-4.0.0 I am trying to convert jcas object to json as below CAS cas =…
User_1940878
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Error Converting jcas object to json object (Infinite recursion)

I am trying to convert a JCas object (org.apache.uima.jcas.JCas) to json string using jackson ObjectMapper as following. public Map> process(final String text) throws ServletException { JCas jcas = null; …
User_1940878
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Maven Downloading Dependencies while it is in the code

Firstly, I am very new to Java I have downloaded an open source code that I need for my study. https://ctakes.apache.org/downloads.cgi after a struggle, I managed to compile and run the code. I have one question that I could not find the answer to…
asmgx
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I dont get "Import Project from Maven" dialog

I am new to Java and following the instructions of how to install an open source application. Steps are here…
asmgx
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Running Java application doing nothing

I am new to Java and I have done every possible scenario I could find or think of This is an open source code that I got for the ineternet for my study https://github.com/healthnlp/examples/tree/gh-pages I tried to run the code through maven install…
asmgx
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Scale up cTakes GUI for HiDPI Monitor

Does anyone know how to scale up Apache's cTAKES GUI to be larger on HiDPI monitors?
Kenpachi
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how to use ctakes in R

I am planning to use Ctakes in R for NLP tasks.But I am not clear on how to create a pipeline or use Ctakes in R? Can someone point me to a step by step procedure on how to use cTakes in R?
tej kiran
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running ctakes with the AggregatePlaintextProcessor

I want to run ctakes with the AggregatePlaintextProcessor or something that doesn't require a connection for UMLS. Help!
user7406833
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cTAKES indication that category > 0 sources are about to be used?

In appendix 1 of the UMLS license agreement, there is a listing of all sources within the current version of the UMLS Metathesaurus with an indication of any additional restrictions and notices that apply. Loosely speaking, it seems like you can…
lampShadesDrifter
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How to explore CAS(es) after analysis by SimplePipeline.runPipeline using CollectionReader?

Good day! I am a bit stumbled by SimplePipeline.runPipeline api with respect to using CollectionReader(s) and CollectionReaderDescription(s). Api description says: Run the CollectionReader and AnalysisEngines as a pipeline. After processing all…
YuGagarin
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