Ejemplo n.º 1
0
 private ValidationResult verifyCodeInCodeSystem(
     CodeSystem cs, String system, String code, String display) throws Exception {
   ConceptDefinitionComponent cc = findCodeInConcept(cs.getConcept(), code);
   if (cc == null)
     if (cs.getContent().equals(CodeSystem.CodeSystemContentMode.COMPLETE))
       return new ValidationResult(
           IssueSeverity.ERROR, "Unknown Code " + code + " in " + cs.getUrl());
     else if (!cs.getContent().equals(CodeSystem.CodeSystemContentMode.NOTPRESENT))
       return new ValidationResult(
           IssueSeverity.WARNING,
           "Unknown Code " + code + " in partial code list of " + cs.getUrl());
     else
       return verifyCodeExternal(
           null, new Coding().setSystem(system).setCode(code).setDisplay(display), false);
   //
   //        return new ValidationResult(IssueSeverity.WARNING, "A definition was found for
   // "+cs.getUrl()+", but it has no codes in the definition");
   //      return new ValidationResult(IssueSeverity.ERROR, "Unknown Code "+code+" in
   // "+cs.getUrl());
   if (display == null) return new ValidationResult(cc);
   CommaSeparatedStringBuilder b = new CommaSeparatedStringBuilder();
   if (cc.hasDisplay()) {
     b.append(cc.getDisplay());
     if (display.equalsIgnoreCase(cc.getDisplay())) return new ValidationResult(cc);
   }
   for (ConceptDefinitionDesignationComponent ds : cc.getDesignation()) {
     b.append(ds.getValue());
     if (display.equalsIgnoreCase(ds.getValue())) return new ValidationResult(cc);
   }
   return new ValidationResult(
       IssueSeverity.WARNING,
       "Display Name for " + code + " must be one of '" + b.toString() + "'",
       cc);
 }
Ejemplo n.º 2
0
 @Override
 public boolean supportsSystem(String system) throws TerminologyServiceException {
   if (codeSystems.containsKey(system)) return true;
   else if (nonSupportedCodeSystems.contains(system)) return false;
   else if (system.startsWith("http://example.org")
       || system.startsWith("http://acme.com")
       || system.startsWith("http://hl7.org/fhir/valueset-")
       || system.startsWith("urn:oid:")) return false;
   else {
     if (noTerminologyServer) return false;
     if (bndCodeSystems == null) {
       try {
         log("Terminology server: Check for supported code systems for " + system);
         bndCodeSystems =
             txServer.fetchFeed(
                 txServer.getAddress()
                     + "/CodeSystem?content=not-present&_summary=true&_count=1000");
       } catch (Exception e) {
         if (canRunWithoutTerminology) {
           noTerminologyServer = true;
           log("==============!! Running without terminology server !!==============");
           return false;
         } else throw new TerminologyServiceException(e);
       }
     }
     if (bndCodeSystems != null) {
       for (BundleEntryComponent be : bndCodeSystems.getEntry()) {
         CodeSystem cs = (CodeSystem) be.getResource();
         if (!codeSystems.containsKey(cs.getUrl())) {
           codeSystems.put(cs.getUrl(), null);
         }
       }
     }
     if (codeSystems.containsKey(system)) return true;
   }
   nonSupportedCodeSystems.add(system);
   return false;
 }
Ejemplo n.º 3
0
  private String gen(Section section, CodeSystem cs, ValueSet vs) {
    String bn = getPNameForUri(cs.getUrl());
    if (!bn.startsWith("<")) {
      section.triple(bn + ".system", "a", "fhir:CodeSystem");
      if (cs.hasVersion()) section.triple(bn + ".system", "fhir:version", literal(cs.getVersion()));
      if (vs.hasName()) section.label(bn + ".system", vs.getName());
      if (vs.hasDescription())
        section.comment(
            bn + ".system",
            vs.getDescription()
                .replace("value set", "code system")
                .replace("Value Set", "Code System")
                .replace("Value set", "Code system"));
      if (vs.hasCopyright())
        section.triple(bn + ".system", "dc:rights", literal(vs.getCopyright()));
      if (vs.hasDate()) section.triple(bn + ".system", "dc:date", literal(vs.getDate().toString()));

      section.triple(bn, "a", "fhir:Concept");

      gen(section, bn, bn, cs.getConcept());
    }
    return bn;
  }