Examining the XMI output of the AggregatePlaintextFastUMLSProcessor.xmi file, there is the tag tree:
> > <analysisEngineDescription xmlns="http://uima.apache.org/resourceSpecifier > "> > <frameworkImplementation>org.apache.uima.java</frameworkImplementation> > <primitive>false</primitive> > <delegateAnalysisEngineSpecifiers>...</delegateAnalysisEngineSpecifiers> > <analysisEngineMetaData> > <name>AggregatePlaintextFastUMLSProcessor</name> > <description> > Runs the complete pipeline for annotating clinical documents in plain text > format using the built in UMLS (SNOMEDCT and RxNORM) dictionaries. This > uses the database in > resources/org/apache/ctakes/dictionary/lookup/fast/ctakessnorx and requires > an UMLS license. Please update > resources/org/apache/ctakes/dictionary/lookup/fast/cTakesHsql.xml file with > your UMLS username and password. > </description> > Which seems to imply that for this analysis engine to work, we need to update the resources/org/apache/ctakes/dictionary/lookup/fast/cTakesHsql.xml file. However, this file does not seem to exist and examining the output when running the AE in the ctakesCVD shows the output > > 24 Mar 2018 18:42:40 INFO DictionaryDescriptorParser - Parsing dictionary > specifications: 24 Mar 2018 18:42:40 INFO UmlsUserApprover - Checking UMLS Account at > https://uts-ws.nlm.nih.gov/restful/isValidUMLSUser for user > myuser > : ......24 Mar 2018 18:42:43 INFO UmlsUserApprover - UMLS Account at > https://uts-ws.nlm.nih.gov/restful/isValidUMLSUser for user > myuser > has been validated > seems to indicate that the UMLS are in fact being used already. Does anyone know what is going on here? Should I be seeing something, but am just missing files? Is this a depreciated comment in the XMI? Thanks.
