Hi Manuel, As far as I know cTAKES supports Pretty print and HTML format too. For more info on this, you may have to look at the cTAKES demo webapp code under https://github.com/healthnlp/examples/blob/master/ctakes-web-client/src/main/java/org/apache/ctakes/web/client/servlet/DemoServlet.java
Also if you are looking for help on parsing XML output, have a look at the beta version of cTAKES REST service XML parsing code under https://github.com/GoTeamEpsilon/ctakes-rest-service/blob/master/ctakes-web-rest/src/main/java/org/apache/ctakes/rest/util/XMLParser.java Regards, Gandhi -----Original Message----- From: Manuel Lamy [mailto:mmvp...@gmail.com] Sent: Monday, March 05, 2018 8:59 AM To: dev@ctakes.apache.org Subject: Output formats - CPE - cTAKES - Persist in database Hello everyone, I'm using cTAKES clinical pipeline in order to process a lot of documents in a row. I'm using this command in the command line: runClinicalPipeline.bat -i input --xmiOut output --user username --pass password This works, adapted to my credentials and my paths of course. My problem is that I can only output in XMI format. My questions are the following: -Is it possible to output a different kind of format than XMI? If yes, what should I change in this command and what are the available formats? -It is of my interest to persist the structured clinical information extracted by cTAKES directly in a database. Is there a format that is more suitable to that task? At the moment, I can only output in XMI format. I built a parser in Perl with a lot of regex in order to process all the information in the XMI file and persist in a database. However, the XMI file has a complex structure and the script, despite of working well, is taking more time than it should to run and persist. If someone could give me some advice about what my possibilities are, I would be appreciated. Best regards, Manuel This email and any files transmitted with it are confidential and intended solely for the use of the individual or entity to whom they are addressed. If you are not the named addressee you should not disseminate, distribute or copy this e-mail. Please notify the sender or system manager by email immediately if you have received this e-mail by mistake and delete this e-mail from your system. If you are not the intended recipient you are notified that disclosing, copying, distributing or taking any action in reliance on the contents of this information is strictly prohibited and against the law.
