Hi Maral, This might be what you are talking about with respect to the Default Clinical Pipeline https://cwiki.apache.org/confluence/display/CTAKES/Default+Clinical+Pipeline
That lists a command line method for running a set of files and getting xml output. The default clinical pipeline configuration is actually contained in the plain text (piper) file resources/org/apache/ctakes/clinical/pipeline/DefaultFastPipeline.piper If you are looking at source code then the file is ctakes-clinical-pipeline-res/src/main/resources/ ... You can also select and run a piper file with a gui https://cwiki.apache.org/confluence/display/CTAKES/Piper+File+Submitter+GUI Both methods are mentioned near the bottom of one of the pages detailing pipeline configuration https://cwiki.apache.org/confluence/display/CTAKES/Piper+Files There are several example pipelines constructed with code and/or plain text files in the ctakes-examples and ctakes-examples-res modules. You can look at the different "Hello World" examples. Since you are playing with maven, you can run the profile "runPiperGui". mvn clean compile -DskipTests -PrunPiperGui Sean ________________________________________ From: Maral Amir <maraljav...@gmail.com> Sent: Thursday, July 18, 2019 2:29 PM To: dev@ctakes.apache.org Subject: cTAKES Pipeline [EXTERNAL] Hi, I just build my developer version of cTAKES with the help of wonderful cTAKES developers. For my next step, I would appreciate if somebody direct me to a right path. I am planning to process text clinical documents through the entire pipeline to generate xml output. I see the website suggest walking through the Default Clinical Pipeline. I understand there are also multiple git repositories on developed command line tool based Apache cTAKES. My final goal is to integrate cTAKES with some Python packages( OCR, etc.) into one pipeline and have some form of web service at the end. I would deeply appreciate any suggestions. Thanks, Maral
