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
