pcvolkmer/onkostar-plugin-dnpm
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Merge branch 'master' into issue_37

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This commit is contained in:
Paul-Christian Volkmer
2023-08-28 14:50:46 +02:00
parent b43b85a5b5 ef21c287f0
commit 994889da4a
9 changed files with 560 additions and 9 deletions
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36
src/main/java/DNPM/DNPMHelper.java
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@ -1,6 +1,9 @@
package DNPM;
import DNPM.analyzer.AnalyzerUtils;
import DNPM.security.IllegalSecuredObjectAccessException;
import DNPM.security.PermissionType;
import DNPM.security.PersonPoolBasedPermissionEvaluator;
import DNPM.services.systemtherapie.SystemtherapieService;
import com.fasterxml.jackson.core.JsonProcessingException;
import com.fasterxml.jackson.databind.ObjectMapper;
@ -17,6 +20,7 @@ import org.hibernate.transform.Transformers;
import org.hibernate.type.StandardBasicTypes;
import org.slf4j.Logger;
import org.slf4j.LoggerFactory;
import org.springframework.security.core.context.SecurityContextHolder;
import java.util.ArrayList;
import java.util.HashMap;
@ -31,9 +35,16 @@ public class DNPMHelper implements IProcedureAnalyzer {
private final SystemtherapieService systemtherapieService;
public DNPMHelper(final IOnkostarApi onkostarApi, final SystemtherapieService systemtherapieService) {
private final PersonPoolBasedPermissionEvaluator personPoolBasedPermissionEvaluator;
public DNPMHelper(
final IOnkostarApi onkostarApi,
final SystemtherapieService systemtherapieService,
final PersonPoolBasedPermissionEvaluator permissionEvaluator
) {
this.onkostarApi = onkostarApi;
this.systemtherapieService = systemtherapieService;
this.personPoolBasedPermissionEvaluator = permissionEvaluator;
}
@Override
@ -45,7 +56,7 @@ public class DNPMHelper implements IProcedureAnalyzer {
@Override
public String getVersion() {
return "0.3.0";
return "0.4.0";
}
@Override
@ -249,4 +260,25 @@ public class DNPMHelper implements IProcedureAnalyzer {
}
}
// TODO Achtung, keine Sicherheitsprüfung, darüber kann für jeden Patienten die Liste mit ECOG-Status abgerufen werden!
public List<SystemtherapieService.EcogStatusWithDate> getEcogStatus(final Map<String, Object> input) {
var pid = AnalyzerUtils.getRequiredId(input, "PatientId");
if (pid.isEmpty()) {
logger.error("Kein Parameter 'PatientId' angegeben, gebe leere Liste zurück");
return List.of();
}
var patient = onkostarApi.getPatient(pid.get());
if (null == patient) {
logger.error("Patient nicht gefunden, gebe leere Liste zurück");
return List.of();
}
if (personPoolBasedPermissionEvaluator.hasPermission(SecurityContextHolder.getContext().getAuthentication(), patient, PermissionType.READ)) {
return systemtherapieService.ecogSatus(patient);
}
throw new IllegalSecuredObjectAccessException("Kein Zugriff auf diesen Patienten");
}
}

172
src/main/java/DNPM/analyzer/SystemtherapieAnalyzer.java Normal file
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@ -0,0 +1,172 @@
package DNPM.analyzer;
import DNPM.services.systemtherapie.SystemtherapieService;
import de.itc.onkostar.api.Disease;
import de.itc.onkostar.api.IOnkostarApi;
import de.itc.onkostar.api.Item;
import de.itc.onkostar.api.Procedure;
import de.itc.onkostar.api.analysis.AnalyseTriggerEvent;
import de.itc.onkostar.api.analysis.AnalyzerRequirement;
import de.itc.onkostar.api.analysis.IProcedureAnalyzer;
import de.itc.onkostar.api.analysis.OnkostarPluginType;
import org.slf4j.Logger;
import org.slf4j.LoggerFactory;
import org.springframework.stereotype.Component;
import java.text.SimpleDateFormat;
import java.util.List;
import java.util.Map;
import java.util.Set;
import java.util.stream.Collectors;
/**
* Diese Klasse implementiert ein Plugin, welches Aktionen nach Bearbeitung eines Formulars zur Systemtherapie durchführt.
*
* @since 0.4.0
*/
@Component
public class SystemtherapieAnalyzer implements IProcedureAnalyzer {
private final Logger logger = LoggerFactory.getLogger(this.getClass());
private final IOnkostarApi onkostarApi;
private final SystemtherapieService systemtherapieService;
public SystemtherapieAnalyzer(
final IOnkostarApi onkostarApi,
final SystemtherapieService systemtherapieService
) {
this.onkostarApi = onkostarApi;
this.systemtherapieService = systemtherapieService;
}
@Override
public OnkostarPluginType getType() {
return OnkostarPluginType.ANALYZER;
}
@Override
public String getVersion() {
return "0.4.0";
}
@Override
public String getName() {
return "DNPM Systemtherapie Analyzer";
}
@Override
public String getDescription() {
return "Aktualisiert verknüpfte Formulare nach Änderungen im Formularen vom Typ Systemtherapie";
}
/**
* @deprecated
*/
@Override
public boolean isRelevantForDeletedProcedure() {
return true;
}
@Override
public boolean isRelevantForAnalyzer(Procedure procedure, Disease disease) {
return null != procedure && null != disease && (
procedure.getFormName().equals("OS.Systemische Therapie")
|| procedure.getFormName().equals("OS.Systemische Therapie.VarianteUKW")
);
}
@Override
public boolean isSynchronous() {
return false;
}
@Override
public AnalyzerRequirement getRequirement() {
return AnalyzerRequirement.PROCEDURE;
}
@Override
public Set<AnalyseTriggerEvent> getTriggerEvents() {
return Set.of(
AnalyseTriggerEvent.EDIT_SAVE,
AnalyseTriggerEvent.EDIT_LOCK,
AnalyseTriggerEvent.REORG
);
}
@Override
public void analyze(Procedure procedure, Disease disease) {
var date = procedure.getStartDate();
var status = procedure.getValue("ECOGvorTherapie");
if (null == date || null == status) {
// Ignore
return;
}
var ecogFromCompleted = systemtherapieService.ecogSatus(procedure.getPatient())
.stream()
.filter(ecogStatusWithDate -> ecogStatusWithDate.getDate().after(disease.getDiagnosisDate()))
.collect(Collectors.toList());
if (ecogFromCompleted.isEmpty()) {
// Nothing to do
return;
}
procedure.getPatient().getDiseases().stream()
.flatMap(d -> onkostarApi.getProceduresForDiseaseByForm(d.getId(), "DNPM Klinik/Anamnese").stream())
.forEach(p -> {
var ufEcog = p.getValue("ECOGVerlauf");
if (null != ufEcog && ufEcog.getValue() instanceof List) {
updateExistingEcogVerlauf(p, ecogFromCompleted, ufEcog);
} else {
newEcogverlauf(p, ecogFromCompleted);
}
});
}
private void updateExistingEcogVerlauf(Procedure p, List<SystemtherapieService.EcogStatusWithDate> ecogFromCompleted, Item ufEcog) {
var shouldSave = false;
var existingDates = ufEcog.<List<Map<String, String>>>getValue().stream()
.map(v -> v.get("Datum"))
.collect(Collectors.toList());
for (var ecog : ecogFromCompleted) {
var formattedDate = new SimpleDateFormat("yyyy-MM-dd").format(ecog.getDate());
if (!existingDates.contains(formattedDate)) {
var newSubProcedure = new Procedure(onkostarApi);
newSubProcedure.setStartDate(ecog.getDate());
newSubProcedure.setValue("Datum", new Item("Datum", ecog.getDate()));
newSubProcedure.setValue("ECOG", new Item("ECOG", ecog.getStatus()));
p.addSubProcedure("ECOGVerlauf", newSubProcedure);
shouldSave = true;
}
}
if (shouldSave) {
try {
onkostarApi.saveProcedure(p, true);
} catch (Exception e) {
logger.error("Cannot update ECOG for procedure '{}'", p.getId());
}
}
}
private void newEcogverlauf(Procedure p, List<SystemtherapieService.EcogStatusWithDate> ecogFromCompleted) {
p.setValue("ECOGVerlauf", new Item("ECOGVerlauf", List.of()));
for (var ecog : ecogFromCompleted) {
var newSubProcedure = new Procedure(onkostarApi);
newSubProcedure.setStartDate(ecog.getDate());
newSubProcedure.setValue("Datum", new Item("Datum", ecog.getDate()));
newSubProcedure.setValue("ECOG", new Item("ECOG", ecog.getStatus()));
p.addSubProcedure("ECOGVerlauf", newSubProcedure);
}
try {
onkostarApi.saveProcedure(p, true);
} catch (Exception e) {
logger.error("Create update ECOG for procedure '{}'", p.getId());
}
}
}

46
src/main/java/DNPM/services/systemtherapie/DefaultSystemtherapieService.java
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@ -2,11 +2,12 @@ package DNPM.services.systemtherapie;
import DNPM.services.SettingsService;
import de.itc.onkostar.api.IOnkostarApi;
import de.itc.onkostar.api.Patient;
import de.itc.onkostar.api.Procedure;
import de.itc.onkostar.api.ProcedureEditStateType;
import java.util.ArrayList;
import java.util.List;
import java.util.Map;
import java.util.*;
import java.util.stream.Collectors;
/**
* Standardimplementierung des Systemtherapieservices
@ -15,6 +16,8 @@ import java.util.Map;
*/
public class DefaultSystemtherapieService implements SystemtherapieService {
private static final String ECOG_FIELD = "ECOGvorTherapie";
private final IOnkostarApi onkostarApi;
private final SettingsService settingsService;
@ -51,6 +54,43 @@ public class DefaultSystemtherapieService implements SystemtherapieService {
return new OsSystemischeTherapieToProzedurwerteMapper();
}
/**
* Ermittelt den letzten bekannten ECOG-Status aus allen Systemtherapieformularen des Patienten
*
* @param patient Der zu verwendende Patient
* @return Der ECOG-Status als String oder leeres Optional
*/
@Override
public Optional<String> latestEcogStatus(Patient patient) {
return ecogSatus(patient).stream()
.max(Comparator.comparing(EcogStatusWithDate::getDate))
.map(EcogStatusWithDate::getStatus);
}
/**
* Ermittelt jeden bekannten ECOG-Status aus allen Systemtherapieformularen des Patienten
*
* @param patient Der zu verwendende Patient
* @return Eine Liste mit Datum und ECOG-Status als String
*/
@Override
public List<EcogStatusWithDate> ecogSatus(Patient patient) {
return patient.getDiseases().stream()
.flatMap(disease -> onkostarApi.getProceduresForDiseaseByForm(disease.getId(), getFormName()).stream())
.filter(procedure -> procedure.getEditState() == ProcedureEditStateType.COMPLETED)
.filter(procedure -> null != procedure.getStartDate())
.sorted(Comparator.comparing(Procedure::getStartDate))
.map(procedure -> {
try {
return new EcogStatusWithDate(procedure.getStartDate(), procedure.getValue(ECOG_FIELD).getString());
} catch (IllegalArgumentException e) {
return null;
}
})
.filter(Objects::nonNull)
.collect(Collectors.toList());
}
private String getFormName() {
return settingsService
.getSetting("systemtherapieform")

57
src/main/java/DNPM/services/systemtherapie/SystemtherapieService.java
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@ -1,9 +1,13 @@
package DNPM.services.systemtherapie;
import de.itc.onkostar.api.Patient;
import de.itc.onkostar.api.Procedure;
import org.springframework.util.Assert;
import java.util.Date;
import java.util.List;
import java.util.Map;
import java.util.Optional;
/**
* Service für Systemtherapieformulare
@ -25,4 +29,57 @@ public interface SystemtherapieService {
*/
ProzedurToProzedurwerteMapper prozedurToProzedurwerteMapper(Procedure procedure);
/**
* Ermittelt den letzten bekannten ECOG-Status aus allen Systemtherapieformularen des Patienten
* @param patient Der zu verwendende Patient
* @return Der ECOG-Status als String oder leeres Optional
*/
Optional<String> latestEcogStatus(Patient patient);
/**
* Ermittelt jeden bekannten ECOG-Status aus allen Systemtherapieformularen des Patienten
* @param patient Der zu verwendende Patient
* @return Eine Liste mit Datum und ECOG-Status als String
*/
List<EcogStatusWithDate> ecogSatus(Patient patient);
/**
* Datenklasse zum Abbilden des ECOG-Status und Datum
*/
class EcogStatusWithDate {
private Date date;
private String status;
public EcogStatusWithDate(Date date, String status) {
Assert.notNull(date, "Date cannot be null");
Assert.hasText(status, "Status cannot be empty String");
Assert.isTrue(isValidEcogCode(status), "Not a valid ADT.LeistungszustandECOG code");
this.date = date;
this.status = status;
}
private boolean isValidEcogCode(String status) {
switch (status) {
case "0":
case "1":
case "2":
case "3":
case "4":
case "5":
case "U":
return true;
default:
return false;
}
}
public Date getDate() {
return date;
}
public String getStatus() {
return status;
}
}
}