use of org.hl7.fhir.utilities.turtle.Turtle.Section in project eCRNow by drajer-health.
the class CdaResultGenerator method generateResultsSection.
public static String generateResultsSection(R4FhirData data, LaunchDetails details) {
StringBuilder hsb = new StringBuilder(5000);
StringBuilder sb = new StringBuilder(2000);
StringBuilder resultEntries = new StringBuilder();
List<Observation> results = getValidLabResults(data);
if (results != null && !results.isEmpty()) {
hsb.append(CdaGeneratorUtils.getXmlForStartElement(CdaGeneratorConstants.COMP_EL_NAME));
hsb.append(CdaGeneratorUtils.getXmlForStartElement(CdaGeneratorConstants.SECTION_EL_NAME));
hsb.append(CdaGeneratorUtils.getXmlForTemplateId(CdaGeneratorConstants.LAB_RESULTS_SEC_TEMPLATE_ID));
hsb.append(CdaGeneratorUtils.getXmlForTemplateId(CdaGeneratorConstants.LAB_RESULTS_SEC_TEMPLATE_ID, CdaGeneratorConstants.LAB_RESULTS_SEC_TEMPLATE_ID_EXT));
hsb.append(CdaGeneratorUtils.getXmlForCD(CdaGeneratorConstants.CODE_EL_NAME, CdaGeneratorConstants.LAB_RESULTS_SEC_CODE, CdaGeneratorConstants.LOINC_CODESYSTEM_OID, CdaGeneratorConstants.LOINC_CODESYSTEM_NAME, CdaGeneratorConstants.LAB_RESULTS_SEC_NAME));
// Add Title
hsb.append(CdaGeneratorUtils.getXmlForText(CdaGeneratorConstants.TITLE_EL_NAME, CdaGeneratorConstants.LAB_RESULTS_SEC_TITLE));
// Add Narrative Text
hsb.append(CdaGeneratorUtils.getXmlForStartElement(CdaGeneratorConstants.TEXT_EL_NAME));
// Create Table Header.
List<String> list = new ArrayList<>();
list.add(CdaGeneratorConstants.LABTEST_TABLE_COL_1_TITLE);
list.add(CdaGeneratorConstants.LABTEST_TABLE_COL_2_TITLE);
list.add(CdaGeneratorConstants.LABTEST_TABLE_COL_3_TITLE);
hsb.append(CdaGeneratorUtils.getXmlForTableHeader(list, CdaGeneratorConstants.TABLE_BORDER, CdaGeneratorConstants.TABLE_WIDTH));
// Add Table Body
hsb.append(CdaGeneratorUtils.getXmlForStartElement(CdaGeneratorConstants.TABLE_BODY_EL_NAME));
int rowNum = 1;
for (Observation obs : results) {
String obsDisplayName = CdaGeneratorConstants.UNKNOWN_VALUE;
List<Coding> cds = null;
if (obs.getCode() != null && obs.getCode().getCodingFirstRep() != null) {
cds = obs.getCode().getCoding();
if (!StringUtils.isEmpty(obs.getCode().getCodingFirstRep().getDisplay())) {
obsDisplayName = obs.getCode().getCodingFirstRep().getDisplay();
} else if (!StringUtils.isEmpty(obs.getCode().getText())) {
obsDisplayName = obs.getCode().getText();
}
}
Map<String, String> bodyvals = new LinkedHashMap<>();
bodyvals.put(CdaGeneratorConstants.LABTEST_TABLE_COL_1_BODY_CONTENT, obsDisplayName);
String val = CdaGeneratorConstants.UNKNOWN_VALUE;
if (obs.getValue() != null) {
val = CdaFhirUtilities.getStringForType(obs.getValue());
}
bodyvals.put(CdaGeneratorConstants.LABTEST_TABLE_COL_2_BODY_CONTENT, val);
String dt = CdaGeneratorConstants.UNKNOWN_VALUE;
if (obs.getEffective() != null) {
dt = CdaFhirUtilities.getStringForType(obs.getEffective());
}
bodyvals.put(CdaGeneratorConstants.LABTEST_TABLE_COL_3_BODY_CONTENT, dt);
sb.append(CdaGeneratorUtils.addTableRow(bodyvals, rowNum));
// Setup the Organizer and Entries
StringBuilder lrEntry = new StringBuilder();
// Add the Entries.
lrEntry.append(CdaGeneratorUtils.getXmlForActEntry(CdaGeneratorConstants.TYPE_CODE_DEF));
// Add the Organizer Act
lrEntry.append(CdaGeneratorUtils.getXmlForAct(CdaGeneratorConstants.ORGANIZER_EL_NAME, CdaGeneratorConstants.ORGANIZER_CLASS_CODE_CLUSTER, CdaGeneratorConstants.MOOD_CODE_DEF));
lrEntry.append(CdaGeneratorUtils.getXmlForTemplateId(CdaGeneratorConstants.LAB_RESULTS_ORG_TEMPLATE_ID));
lrEntry.append(CdaGeneratorUtils.getXmlForTemplateId(CdaGeneratorConstants.LAB_RESULTS_ORG_TEMPLATE_ID, CdaGeneratorConstants.LAB_RESULTS_ORG_TEMPLATE_ID_EXT));
lrEntry.append(CdaGeneratorUtils.getXmlForIIUsingGuid());
// Fix the Code to be the same as the result code..
logger.debug("Find the Loinc Code as a priority first for Lab Results");
String codeXml = CdaFhirUtilities.getCodingXmlForCodeSystem(cds, CdaGeneratorConstants.CODE_EL_NAME, CdaGeneratorConstants.FHIR_LOINC_URL, false, "");
logger.debug("Code Xml = {}", codeXml);
if (!codeXml.isEmpty()) {
lrEntry.append(codeXml);
} else {
lrEntry.append(CdaFhirUtilities.getCodingXml(cds, CdaGeneratorConstants.CODE_EL_NAME, ""));
}
lrEntry.append(CdaGeneratorUtils.getXmlForCD(CdaGeneratorConstants.STATUS_CODE_EL_NAME, CdaGeneratorConstants.COMPLETED_STATUS));
lrEntry.append(getXmlForObservation(details, obs, CdaGeneratorConstants.LABTEST_TABLE_COL_1_BODY_CONTENT, rowNum));
// End Tags for Entries
lrEntry.append(CdaGeneratorUtils.getXmlForEndElement(CdaGeneratorConstants.ORGANIZER_EL_NAME));
lrEntry.append(CdaGeneratorUtils.getXmlForEndElement(CdaGeneratorConstants.ENTRY_EL_NAME));
resultEntries.append(lrEntry);
rowNum++;
}
// End the Sb string.
sb.append(CdaGeneratorUtils.getXmlForEndElement(CdaGeneratorConstants.TABLE_BODY_EL_NAME));
// End Table.
sb.append(CdaGeneratorUtils.getXmlForEndElement(CdaGeneratorConstants.TABLE_EL_NAME));
sb.append(CdaGeneratorUtils.getXmlForEndElement(CdaGeneratorConstants.TEXT_EL_NAME));
hsb.append(sb);
// Add lab results
hsb.append(resultEntries);
// Complete the section end tags.
hsb.append(CdaGeneratorUtils.getXmlForEndElement(CdaGeneratorConstants.SECTION_EL_NAME));
hsb.append(CdaGeneratorUtils.getXmlForEndElement(CdaGeneratorConstants.COMP_EL_NAME));
} else {
hsb.append(generateEmptyLabResults());
}
return hsb.toString();
}
use of org.hl7.fhir.utilities.turtle.Turtle.Section in project eCRNow by drajer-health.
the class EicrCompositionGenerator method convertR4FhirBundletoCdaEicr.
public static Composition convertR4FhirBundletoCdaEicr(R4FhirData data) {
Composition comp = new Composition();
// Add version number extension.
comp.addExtension(FhirGeneratorConstants.COMP_CLIN_DOC_VERSION_NUM_URL, new StringType(String.valueOf(FhirGeneratorConstants.VERSION_NUM)));
// Add Type
comp.setType(FhirGeneratorUtils.getCodeableConcept(FhirGeneratorConstants.LOINC_CS_URL, FhirGeneratorConstants.COMP_TYPE_CODE, FhirGeneratorConstants.COMP_TYPE_CODE_DISPLAY));
// Setup Patient.
comp.getSubject().setResource(data.getPatient());
// Setup Encounter
if (data.getEncounter() != null)
comp.getEncounter().setResource(data.getEncounter());
// Add Authors.
List<Reference> auths = new ArrayList<>();
// Add organization
if (data.getOrganization() != null)
auths.add(FhirGeneratorUtils.getReference(data.getOrganization()));
if (data.getPractitioner() != null)
auths.add(FhirGeneratorUtils.getReference(data.getPractitioner()));
comp.setAuthor(auths);
// Add Reason for Visit Section;
SectionComponent rvs = FhirGeneratorUtils.getSectionComponent(FhirGeneratorConstants.LOINC_CS_URL, FhirGeneratorConstants.REASON_FOR_VISIT_CODE, FhirGeneratorConstants.REASON_FOR_VISIT_CODE_DISPLAY);
// Set the Section Code Display to be the narrative text.
rvs.getCode().setTextElement(new StringType(FhirGeneratorUtils.getReasonForVisitNarrativeText(data.getEncounter())));
comp.getSection().add(rvs);
return comp;
}
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