Thank you Bruce for the tip. Makes sense! Didn't realize the file was within the jar. ben
-----Original Message----- From: Bruce Tietjen [mailto:[email protected]] Sent: Friday, February 26, 2016 2:50 PM To: [email protected] Subject: Re: ctakes our existing web application FYI -- I believe the details of the error is that the Lvg needs to read it's data files from a flat file (it doesn't support reading resources from a jar). The data file must be available in a flat file and the configuration needs to point to the correct location for those files. [image: IMAT Solutions] <http://imatsolutions.com> Bruce Tietjen Senior Software Engineer [image: Mobile:] 801.634.1547 [email protected] On Fri, Feb 26, 2016 at 1:57 PM, Ben Yu <[email protected]> wrote: > Oh beautiful! Thank you Chris. Exactly the direction I was going to. > I'll dive into it ... > > Thanks, > ben > > -----Original Message----- > From: Mattmann, Chris A (3980) [mailto:[email protected]] > Sent: Friday, February 26, 2016 1:54 PM > To: [email protected] > Subject: Re: ctakes our existing web application > > Hey there, > > You may want to look at Shangridocs, which provides cTAKES as a REST > service via Tika: > > http://github.com/chrismattmann/shangridocs.git > > Happy to help get you started. > > Cheers, > Chris > > ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ > Chris Mattmann, Ph.D. > Chief Architect > Instrument Software and Science Data Systems Section (398) NASA Jet > Propulsion Laboratory Pasadena, CA 91109 USA > Office: 168-519, Mailstop: 168-527 > Email: [email protected] > WWW: http://sunset.usc.edu/~mattmann/ > ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ > Adjunct Associate Professor, Computer Science Department University of > Southern California, Los Angeles, CA 90089 USA > ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ > > > > > > -----Original Message----- > From: Ben Yu <[email protected]> > Reply-To: "[email protected]" <[email protected]> > Date: Friday, February 26, 2016 at 12:52 PM > To: "[email protected]" <[email protected]> > Subject: ctakes our existing web application > > >Hi group, > >We started to look at options to integrate ctakes into our existing > >web app and started the experiment on the ClinicalPipelineFactory > >class. I can run it with different engine descriptions and see the > >outputs without doing any modifications. But when I create my own > >class in my web app and follow the same logic, I got this error: > >Exception in thread "main" java.lang.IllegalArgumentException: URI is > >not hierarchical > > at java.io.File.<init>(File.java:418) > > at > >org.apache.ctakes.lvg.ae.LvgAnnotator.createAnnotatorDescription(LvgA > >nn > >ota > >tor.java:565) > > at > >edu.utah.porc.chartreview.ctakes.ClinicalPipelineFactory.getTokenProc > >es > >sin > >gPipeline(ClinicalPipelineFactory.java:132) > > at > >edu.utah.porc.chartreview.ctakes.ClinicalPipelineFactory.getDefaultPi > >pe > >lin > >e(ClinicalPipelineFactory.java:71) > > at > >edu.utah.porc.chartreview.ctakes.ClinicalPipelineFactory.main(Clinica > >lP > >ipe > >lineFactory.java:244) > > > >I am very new to ctakes and I realized there are lots of setups need > >to be done but not sure if this is related to anything amiss? > > > >The web app is a spring/maven project. I've put in all the ctakes > >dependencies and got over the compiling. Above was a run time error. > > > >Thanks in adance for any help, > >Ben > >801-587-7751 > > > >
