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https://github.com/pcvolkmer/onkostar-plugin-dnpm.git
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Issue #42: Verschiebe Pluginklassen in Paket 'analyzer' und passe an
This commit is contained in:
260
src/main/java/DNPM/analyzer/DNPMHelper.java
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260
src/main/java/DNPM/analyzer/DNPMHelper.java
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package DNPM.analyzer;
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import DNPM.VerweisVon;
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import DNPM.security.IllegalSecuredObjectAccessException;
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import DNPM.security.PermissionType;
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import DNPM.security.PersonPoolBasedPermissionEvaluator;
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import DNPM.services.systemtherapie.SystemtherapieService;
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import com.fasterxml.jackson.core.JsonProcessingException;
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import com.fasterxml.jackson.databind.ObjectMapper;
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import de.itc.onkostar.api.Disease;
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import de.itc.onkostar.api.IOnkostarApi;
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import de.itc.onkostar.api.Procedure;
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import de.itc.onkostar.api.analysis.AnalyzerRequirement;
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import org.hibernate.SQLQuery;
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import org.hibernate.Session;
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import org.hibernate.SessionFactory;
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import org.hibernate.transform.Transformers;
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import org.hibernate.type.StandardBasicTypes;
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import org.slf4j.Logger;
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import org.slf4j.LoggerFactory;
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import org.springframework.security.core.context.SecurityContextHolder;
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import java.util.ArrayList;
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import java.util.HashMap;
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import java.util.List;
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import java.util.Map;
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public class DNPMHelper extends BackendService {
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private static final Logger logger = LoggerFactory.getLogger(DNPMHelper.class);
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private final IOnkostarApi onkostarApi;
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private final SystemtherapieService systemtherapieService;
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private final PersonPoolBasedPermissionEvaluator personPoolBasedPermissionEvaluator;
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public DNPMHelper(
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final IOnkostarApi onkostarApi,
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final SystemtherapieService systemtherapieService,
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final PersonPoolBasedPermissionEvaluator permissionEvaluator
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) {
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this.onkostarApi = onkostarApi;
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this.systemtherapieService = systemtherapieService;
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this.personPoolBasedPermissionEvaluator = permissionEvaluator;
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}
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@Override
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public String getDescription() {
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return "Methoden für DNPM-Formulare";
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}
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@Override
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public boolean isRelevantForDeletedProcedure() {
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return false;
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}
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@Override
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public boolean isSynchronous() {
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return true;
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}
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@Override
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public AnalyzerRequirement getRequirement() {
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return AnalyzerRequirement.PROCEDURE;
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}
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@Override
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public boolean isRelevantForAnalyzer(Procedure entry, Disease currentDisease) {
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// Plugin enthält nur Methoden für Formulare und soll nicht ausgeführt werden
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return false;
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}
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@SuppressWarnings("unchecked")
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public List<Map<String, String>> getVerweise(final Map<String, Object> input) {
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var procedureId = AnalyzerUtils.getRequiredId(input, "ProcedureId");
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var patientId = AnalyzerUtils.getRequiredId(input, "PatientId");
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if (procedureId.isEmpty() || patientId.isEmpty()) {
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return null;
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}
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var verbundeneFormulare = new ArrayList<Map<String, String>>();
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try {
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SessionFactory sessionFactory = onkostarApi.getSessionFactory();
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Session session = sessionFactory.getCurrentSession();
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String sql = "SELECT prozedur.id AS procedure_id, prozedur.data_form_id, data_catalogue.name AS data_catalogue, data_catalogue_entry.name AS data_catalogue_entry, data_form.description AS formname, prozedur.beginndatum AS datum " +
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"FROM prozedur " +
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"LEFT JOIN data_form_data_catalogue ON data_form_data_catalogue.data_form_id = prozedur.data_form_id " +
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"LEFT JOIN data_catalogue_entry ON data_catalogue_entry.data_catalogue_id = data_form_data_catalogue.data_catalogue_id " +
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"LEFT JOIN data_catalogue ON data_catalogue.id = data_catalogue_entry.data_catalogue_id " +
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"LEFT JOIN data_form ON data_form.id = prozedur.data_form_id " +
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"WHERE patient_id = " + patientId.get() + " " +
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"AND geloescht = 0 " +
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"AND data_catalogue_entry.type = 'formReference' " +
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"GROUP BY prozedur.id, prozedur.data_form_id, data_catalogue.name, data_catalogue_entry.name";
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SQLQuery query = session.createSQLQuery(sql)
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.addScalar("procedure_id", StandardBasicTypes.INTEGER)
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.addScalar("data_form_id", StandardBasicTypes.INTEGER)
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.addScalar("data_catalogue", StandardBasicTypes.STRING)
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.addScalar("data_catalogue_entry", StandardBasicTypes.STRING)
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.addScalar("formname", StandardBasicTypes.STRING)
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.addScalar("datum", StandardBasicTypes.DATE);
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query.setResultTransformer(Transformers.aliasToBean(VerweisVon.class));
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List<VerweisVon> result = query.list();
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try {
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int value = 0;
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for (VerweisVon verweisVon : result) {
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sql = verweisVon.getSQL();
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query = session.createSQLQuery(sql)
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.addScalar("value", StandardBasicTypes.INTEGER);
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if (query.uniqueResult() != null) {
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value = (Integer) query.uniqueResult();
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}
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if (value == procedureId.get()) {
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verbundeneFormulare.add(Map.of("formular", verweisVon.getVerbundenesFormular()));
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value = 0;
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}
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}
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} catch (Exception e) {
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logger.warn("Fehler beim Hinzufügen eines Formularverweises", e);
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}
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} catch (Exception e) {
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logger.error("Fehler beim Ermitteln der Formularverweise", e);
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return null;
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}
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return verbundeneFormulare;
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}
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public List<Map<String, String>> getSystemischeTherapienFromDiagnose(final Map<String, Object> input) {
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var diagnoseId = AnalyzerUtils.getRequiredId(input, "DiagnoseId");
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if (diagnoseId.isEmpty()) {
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logger.error("Kein Parameter 'DiagnoseId' angegeben, gebe 'null' zurück");
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return null;
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}
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return systemtherapieService.getSystemischeTherapienFromDiagnose(diagnoseId.get());
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}
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public String getProzedurenFromDiagnose(final Map<String, Object> input) {
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// Prozedur, Feldname, Wert
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var dataForm = AnalyzerUtils.getRequiredValue(input, "dataForm", String.class);
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var diagnoseId = AnalyzerUtils.getRequiredId(input, "DiagnoseId");
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var patientId = AnalyzerUtils.getRequiredId(input, "PatientId");
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if (dataForm.isEmpty() || diagnoseId.isEmpty() || patientId.isEmpty()) {
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return "";
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}
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var formulare = new ArrayList<Map<String, Object>>();
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List<Procedure> prozeduren = onkostarApi.getProceduresByPatientId(patientId.get());
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for (Procedure Prozedur : prozeduren) {
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// Formular gehört zur aktuellen Diagnose und hat den angegebenen Namen
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if (Prozedur.getDiseaseIds().contains(diagnoseId.get()) && Prozedur.getFormName().contains(dataForm.get())) {
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// alle Werte auslesen
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// System.out.println(WerteListe.getKey() + ": " + WerteListe.getValue());
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formulare.add(Map.of(
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"Formular", Prozedur.getFormName(),
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"Felder", new HashMap<>(Prozedur.getAllValues())
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));
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}
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}
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try {
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ObjectMapper objectMapper = new ObjectMapper();
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return objectMapper.writeValueAsString(formulare);
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} catch (JsonProcessingException e) {
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logger.error("Kann Formulare nicht in JSON mappen", e);
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}
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return "";
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}
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public Object getEmpfehlung(final Map<String, Object> input) {
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var procedureID = AnalyzerUtils.getRequiredId(input, "ProcedureID");
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if (procedureID.isEmpty()) {
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logger.error("Kein Parameter 'ProcedureID' angegeben, gebe 'null' zurück");
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return null;
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}
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try {
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SessionFactory sessionFactory = onkostarApi.getSessionFactory();
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Session session = sessionFactory.getCurrentSession();
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var sql = "SELECT prozedur.id, genname, geneid, geneidlink, empfehlung, beginndatum FROM prozedur "
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+ "LEFT JOIN dk_mtb_einzelempfehlung em ON em.id = prozedur.id "
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+ "JOIN data_form df ON prozedur.data_form_id = df.id AND df.name = 'MR.MTB_Einzelempfehlung' "
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+ "WHERE prozedur.hauptprozedur_id = " + procedureID.get() + " AND prozedur.geloescht = 0 "
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+ "ORDER BY beginndatum";
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SQLQuery query = session.createSQLQuery(sql)
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.addScalar("id", StandardBasicTypes.STRING)
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.addScalar("genname", StandardBasicTypes.STRING)
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.addScalar("geneid", StandardBasicTypes.STRING)
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.addScalar("geneidlink", StandardBasicTypes.STRING)
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.addScalar("empfehlung", StandardBasicTypes.STRING)
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.addScalar("beginndatum", StandardBasicTypes.STRING);
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@SuppressWarnings("unchecked")
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List<String[]> rows = query.list();
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return rows;
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} catch (Exception e) {
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logger.error("Fehler bei Abfrage von Empfehlungen", e);
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return null;
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}
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}
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public Object updateEmpfehlungPrio(final Map<String, Object> input) {
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// Auslesen und Prüfen der Parameter aus 'input'
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var rid = AnalyzerUtils.getRequiredId(input, "rid");
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if (rid.isEmpty()) {
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logger.error("Kein Parameter 'rid' angegeben, gebe 'false' zurück");
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return false;
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}
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var strDate = AnalyzerUtils.getRequiredValueMatching(input, "bd", "[\\d]{4}-[\\d]{2}-[\\d]{2}");
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if (strDate.isEmpty()) {
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logger.error("Kein oder ungültiger Parameter 'bd' angegeben, gebe 'false' zurück");
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return false;
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}
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//String strD = strDate.toString();
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//String CompareDate = strD.substring(1, 11);
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//DateFormat simpleDateFormat=new SimpleDateFormat("yyyy-MM-dd");
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try {
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String sql = "UPDATE prozedur SET beginndatum = '" + strDate.get() + "' WHERE id = '" + rid.get() + "' ";
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SQLQuery result = onkostarApi.getSessionFactory().getCurrentSession().createSQLQuery(sql);
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result.executeUpdate();
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return true;
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} catch (Exception e) {
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return "Achtung: Ein Fehler ist aufgetreten, Änderung konnte nicht gespeichert werden!";
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//return null;
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}
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}
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// TODO Achtung, keine Sicherheitsprüfung, darüber kann für jeden Patienten die Liste mit ECOG-Status abgerufen werden!
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public List<SystemtherapieService.EcogStatusWithDate> getEcogStatus(final Map<String, Object> input) {
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var pid = AnalyzerUtils.getRequiredId(input, "PatientId");
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if (pid.isEmpty()) {
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logger.error("Kein Parameter 'PatientId' angegeben, gebe leere Liste zurück");
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return List.of();
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}
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var patient = onkostarApi.getPatient(pid.get());
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if (null == patient) {
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logger.error("Patient nicht gefunden, gebe leere Liste zurück");
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return List.of();
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}
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if (personPoolBasedPermissionEvaluator.hasPermission(SecurityContextHolder.getContext().getAuthentication(), patient, PermissionType.READ)) {
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return systemtherapieService.ecogSatus(patient);
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}
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throw new IllegalSecuredObjectAccessException("Kein Zugriff auf diesen Patienten");
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}
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}
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