/**
* @see org.openmrs.calculation.patient.PatientCalculation#evaluate(java.util.Collection,
* java.util.Map, org.openmrs.calculation.patient.PatientCalculationContext)
*/
@Override
public CalculationResultMap evaluate(
Collection<Integer> cohort,
Map<String, Object> parameterValues,
PatientCalculationContext context) {
Program mchcsProgram = MetadataUtils.getProgram(MchMetadata._Program.MCHCS);
// Get all patients who are alive and in MCH-CS program
Set<Integer> alive = Filters.alive(cohort, context);
Set<Integer> inMchcsProgram = Filters.inProgram(mchcsProgram, alive, context);
// get wheather the child is HIV Exposed
CalculationResultMap lastChildHivStatus =
Calculations.lastObs(
Dictionary.getConcept(Dictionary.CHILDS_CURRENT_HIV_STATUS), inMchcsProgram, context);
CalculationResultMap medOrdersObss =
Calculations.allObs(Dictionary.getConcept(Dictionary.MEDICATION_ORDERS), cohort, context);
// Get concepts for medication prophylaxis
Concept nvp = Dictionary.getConcept(Dictionary.NEVIRAPINE);
Concept nvpazt3tc = Dictionary.getConcept(Dictionary.LAMIVUDINE_NEVIRAPINE_ZIDOVUDINE);
Concept hivExposed = Dictionary.getConcept(Dictionary.EXPOSURE_TO_HIV);
CalculationResultMap ret = new CalculationResultMap();
for (Integer ptId : cohort) {
boolean notOnPcp = false;
// checking wheather the infant is in mchcs program, alive and HEI
Obs hivStatusObs = EmrCalculationUtils.obsResultForPatient(lastChildHivStatus, ptId);
if (inMchcsProgram.contains(ptId)
&& lastChildHivStatus != null
&& hivStatusObs != null
&& (hivStatusObs.getValueCoded().equals(hivExposed))) {
notOnPcp = true;
ListResult patientMedOrders = (ListResult) medOrdersObss.get(ptId);
if (patientMedOrders != null) {
// Look through list of medication order obs for any CTX
List<Obs> medOrderObsList = CalculationUtils.extractResultValues(patientMedOrders);
for (Obs medOrderObs : medOrderObsList) {
if (medOrderObs.getValueCoded().equals(nvp)
|| medOrderObs.getValueCoded().equals(nvpazt3tc)) {
notOnPcp = false;
break;
}
}
}
}
ret.put(ptId, new BooleanResult(notOnPcp, this, context));
}
return ret;
}
/**
* Evaluates the calculation
*
* @should calculate false for deceased patients
* @should calculate false for patients not in HIV program
* @should calculate false for patients with an encounter in last LOST_TO_FOLLOW_UP_THRESHOLD_DAYS
* days days since appointment date
* @should calculate true for patient with no encounter in last LOST_TO_FOLLOW_UP_THRESHOLD_DAYS
* days days since appointment date
*/
@Override
public CalculationResultMap evaluate(
Collection<Integer> cohort, Map<String, Object> arg1, PatientCalculationContext context) {
Program hivProgram = MetadataUtils.existing(Program.class, HivMetadata._Program.HIV);
Concept reasonForDiscontinuation =
Dictionary.getConcept(Dictionary.REASON_FOR_PROGRAM_DISCONTINUATION);
Concept transferout = Dictionary.getConcept(Dictionary.TRANSFERRED_OUT);
Set<Integer> alive = Filters.alive(cohort, context);
Set<Integer> inHivProgram = Filters.inProgram(hivProgram, alive, context);
// CalculationResultMap lastEncounters = Calculations.lastEncounter(null, inHivProgram,
// context);
CalculationResultMap lastReturnDateObss =
Calculations.lastObs(
Dictionary.getConcept(Dictionary.RETURN_VISIT_DATE), inHivProgram, context);
CalculationResultMap lastProgramDiscontinuation =
Calculations.lastObs(reasonForDiscontinuation, cohort, context);
CalculationResultMap ret = new CalculationResultMap();
for (Integer ptId : cohort) {
boolean lost = false;
// Is patient alive and in the HIV program
if (alive.contains(ptId)) {
// Patient is lost if no encounters in last X days
// Encounter lastEncounter = EmrCalculationUtils.encounterResultForPatient(lastEncounters,
// ptId);
Date lastScheduledReturnDate =
EmrCalculationUtils.datetimeObsResultForPatient(lastReturnDateObss, ptId);
Obs discontuation =
EmrCalculationUtils.obsResultForPatient(lastProgramDiscontinuation, ptId);
if (lastScheduledReturnDate != null) {
if (daysSince(lastScheduledReturnDate, context)
> HivConstants.LOST_TO_FOLLOW_UP_THRESHOLD_DAYS) {
lost = true;
}
if (discontuation != null && discontuation.getValueCoded().equals(transferout)) {
lost = false;
}
}
}
ret.put(ptId, new SimpleResult(lost, this, context));
}
return ret;
}
@Override
public CalculationResultMap evaluate(
Collection<Integer> cohort,
Map<String, Object> parameterValues,
PatientCalculationContext context) {
Program hivProgram = MetadataUtils.existing(Program.class, HivMetadata._Program.HIV);
Set<Integer> alive = Filters.alive(cohort, context);
Set<Integer> inHivProgram = Filters.inProgram(hivProgram, alive, context);
Set<Integer> aliveAndFemale = Filters.female(Filters.alive(cohort, context), context);
CalculationResultMap ret = new CalculationResultMap();
// need to exclude those on ART already
Set<Integer> onArt =
CalculationUtils.patientsThatPass(calculate(new OnArtCalculation(), cohort, context));
// find the observation for viral load recorded
CalculationResultMap viralLoad =
Calculations.lastObs(Dictionary.getConcept(Dictionary.HIV_VIRAL_LOAD), cohort, context);
// get a list of all the viral load
CalculationResultMap viralLoadList =
Calculations.allObs(Dictionary.getConcept(Dictionary.HIV_VIRAL_LOAD), cohort, context);
// check for non detectables
CalculationResultMap ldlViralLoad =
Calculations.allObs(
Dictionary.getConcept(Dictionary.HIV_VIRAL_LOAD_QUALITATIVE), cohort, context);
// check for test orders
CalculationResultMap testOrders =
Calculations.allObs(Dictionary.getConcept(Dictionary.TESTS_ORDERED), cohort, context);
// check for last ldl
CalculationResultMap ldlLast =
Calculations.lastObs(
Dictionary.getConcept(Dictionary.HIV_VIRAL_LOAD_QUALITATIVE), cohort, context);
// find for prgnant females
CalculationResultMap pregStatusObss =
Calculations.lastObs(
Dictionary.getConcept(Dictionary.PREGNANCY_STATUS), aliveAndFemale, context);
// get the initial art start date
CalculationResultMap artStartDate =
calculate(new InitialArtStartDateCalculation(), cohort, context);
for (Integer ptId : cohort) {
boolean needsViralLoadTest = false;
Obs viralLoadObs = EmrCalculationUtils.obsResultForPatient(viralLoad, ptId);
Date dateInitiated = EmrCalculationUtils.datetimeResultForPatient(artStartDate, ptId);
ListResult listResult = (ListResult) viralLoadList.get(ptId);
ListResult testOrdersList = (ListResult) testOrders.get(ptId);
List<Obs> testObsList = CalculationUtils.extractResultValues(testOrdersList);
List<Obs> listObsViralLoads = CalculationUtils.extractResultValues(listResult);
ListResult ldlList = (ListResult) ldlViralLoad.get(ptId);
List<List> listLdl = CalculationUtils.extractResultValues(ldlList);
Obs lastLdlObs = EmrCalculationUtils.obsResultForPatient(ldlLast, ptId);
// find pregnancy obs
Obs pregnantEdd = EmrCalculationUtils.obsResultForPatient(pregStatusObss, ptId);
// Find latest viral load test order
Obs lastVlTestOrder = getLatestVlOrder(testObsList);
if (inHivProgram.contains(ptId) && onArt.contains(ptId)) {
if (listObsViralLoads.size() == 0
&& listLdl.size() == 0
&& dateInitiated != null
&& (daysSince(dateInitiated, context) >= 180)) {
needsViralLoadTest = true;
}
// need to check here if patient has had any viral load
/*if(dateInitiated != null && (daysSince(dateInitiated, context) >= 360)) {
needsViralLoadTest = true;
}*/
// those continuing should receive one VL every year
// pick the date of the last viral load numeric values
if (viralLoadObs != null && (daysSince(viralLoadObs.getObsDatetime(), context) >= 360)) {
needsViralLoadTest = true;
}
// pick the date of the ldl
if (lastLdlObs != null && (daysSince(lastLdlObs.getObsDatetime(), context) >= 360)) {
needsViralLoadTest = true;
}
// if vl more than
if (viralLoadObs != null
&& viralLoadObs.getValueNumeric() > 1000
&& (daysSince(viralLoadObs.getObsDatetime(), context) > 90)) {
needsViralLoadTest = true;
if (lastLdlObs != null && (daysSince(lastLdlObs.getObsDatetime(), context) < 360)) {
needsViralLoadTest = false;
}
}
// check for pregnancy
if (pregnantEdd != null
&& pregnantEdd.getValueCoded().equals(Dictionary.getConcept(Dictionary.YES))
&& dateInitiated != null) {
Date whenVLWillBeDue =
DateUtil.adjustDate(
DateUtil.adjustDate(dateInitiated, 6, DurationUnit.MONTHS),
-1,
DurationUnit.DAYS);
// if last vl is 6 months older then the patient is due for vl
if (viralLoadObs == null && lastLdlObs == null) {
needsViralLoadTest = true;
}
if (viralLoadObs == null
&& lastLdlObs == null
&& (context.getNow().after(whenVLWillBeDue))) {
needsViralLoadTest = true;
}
if (viralLoadObs != null
&& viralLoadObs.getValueNumeric() > 1000
&& (monthsBetween(viralLoadObs.getObsDatetime(), context.getNow()) >= 3)) {
needsViralLoadTest = true;
if (lastLdlObs != null && (daysSince(lastLdlObs.getObsDatetime(), context) < 360)) {
needsViralLoadTest = false;
}
}
if (viralLoadObs != null && daysSince(viralLoadObs.getObsDatetime(), context) >= 180) {
needsViralLoadTest = true;
}
if (lastLdlObs != null && daysSince(lastLdlObs.getObsDatetime(), context) >= 180) {
needsViralLoadTest = true;
}
}
// check if has vl test order within 6 months
if (lastVlTestOrder != null
&& daysSince(lastVlTestOrder.getObsDatetime(), context) >= 180) {
needsViralLoadTest = true;
}
if (lastVlTestOrder != null && daysSince(lastVlTestOrder.getObsDatetime(), context) < 180) {
needsViralLoadTest = false;
}
}
ret.put(ptId, new BooleanResult(needsViralLoadTest, this));
}
return ret;
}