Hi Reed, Just check the PipelineRunner class in the link - https://github.com/GoTeamEpsilon/ctakes-rest-service/blob/master/ctakes-web-rest/src/main/java/org/apache/ctakes/rest/service/CtakesRestController.java and see if it helps.
Regards, Gandhi From: Reed Villanueva [mailto:villanuevar...@gmail.com] Sent: Tuesday, April 10, 2018 1:15 PM To: email@example.com Subject: How to get XMI output fie from java jcas? How can I get the output of a pipeline built in java as an XMI file similar to how piper files output extracted annotation information in form of XMI files? Eg. I have the code AggregateBuilder builder = new AggregateBuilder(); builder.add( ClinicalPipelineFactory.getDefaultPipeline() ); SimplePipeline.runPipeline( jcas, builder.createAggregateDescription() ); But how do I get all of the annotation info in XMI form from the jcas after this (like what gets generated in outputDirectory when doing bin/runClinicalPipeline -i inputDirectory --xmiOut outputDirectory --user umlsUsername --pass umlsPassword )? Also, what class can be used to read existing XMI output files? Thank you. 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.