What you'll be able to do

1. Interact with cTAKES Default Clinical Pipeline through a Python RESTful API doing:
   • Annotations for;
     • Anatomical sites,
     • Signs/Symptoms,
     • Procedures,
     • Diseases/Disorders and
     • Medications.

Input: Plain Text File Output: XMI File

Orginal wiki page: https://cwiki.apache.org/confluence/display/CTAKES/Default+Clinical+Pipeline

cTAKES Install Instructions

1. Execute ./ctakes-install/ctakes-install.sh, which will:
   • Download a copy of cTAKES into ./ctakes-install/tmp
   • Extract cTAKES then copy into ctakes-install (cTAKES_HOME) directory
   • Download ctakes-resources-4.0-bin.zip into ./ctakes-install/tmp
   • Unzip ctakes-resources-4.0-bin.zip and copy into apache-ctakes-4.0.0/resources
   • Remove/clean /tmp directory from ctakes-install
   • Set your UMLS credentials in umls.sh

Note: If you don't have a UMLS username & password you'll need to request one at https://uts.nlm.nih.gov/license.html

Setting up Python RESTful API Instructions

COMING SOON!