Finally got around to looking at these: work great on ubuntu 13.1
JG — Sent from Mailbox for iPhone On Tue, Dec 24, 2013 at 3:48 PM, Masanz, James J. <masanz.ja...@mayo.edu> wrote: > I checked in 2 groovy scripts under > ctakes-core\scripts\groovy\ > I checked into trunk. Will gladly move or remove if needed. > They do not do automatic downloads of ctakes, instead they rely on user to > already have downloaded a convenience binary and the separately downloadable > resources, and to have extracted both of those. > They run the same as what's defined in AggregatePlaintextUMLSProcessor.xml > except I haven't included the semantic role labeler or the dependency parser > yet (just for lack of time today). Right now the script uses XML descriptors > for some parts and uimaFIT without using XML descriptor files for other parts > of the pipeline. > I have a few other TODOs but the scripts are ready for others to look at. > Feedback welcome and encouraged! > To run: > Install groovy > Have groovy on your path. > Within run_cTAKES.groovy, you need to set the values of > cTAKES_HOME > EXTERNAL_RESOURCE_PATH > Set JAVA_OPTS env variable as follows > -Dctakes.umlsuser=YOUR_USERID -Dctakes.umlspw=YOUR_PWD > Then to run, enter this, with inputDirName being wherever you have your input > text files. > groovy run_cTAKES.groovy inputDirName > -- James
