pcvolkmer/mv64e-onkostar-data
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feat: use patient id, not patients database id

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This commit is contained in:
Paul-Christian Volkmer
2025-07-04 00:03:58 +02:00
parent ce3df8da5e
commit 3e5c2cbb80
39 changed files with 102 additions and 142 deletions
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4
README.md
View File

@@ -23,7 +23,7 @@ var jsonResult = Converter.toJsonString(
```
Es ist auch möglich, die Daten anhand der Patienten-ID und dem Tumoridentifikator zu ermitteln.
Hierbei wird das letzte Formular `DNPM Klinik/Anamnese` andhand des Anmeldedatums MTB
Hierbei wird das letzte Formular `DNPM Klinik/Anamnese` anhand des Anmeldedatums MTB
ausgewählt und verwendet.
```
@@ -38,7 +38,7 @@ var jsonResult = Converter.toJsonString(
| DNPM-Datenmodell 2.1 - Bereich | Status | Anmerkung |
|----------------------------------|--------|--------------------------------------------------------------------------------|
| Patient | ✅ | Verwendet Datenbank-ID, keine managing Site |
| Patient | ✅ | Verwendet Patienten-ID, nicht Datenbank-ID. Keine Managing Site |
| Episoden | ✅ | |
| Diagnosen | ✅ | Entsprechend Formularaufbau nur Diagnose der aktuellen Episode |
| Verwandten-Diagnosen | ✅ | |

17
src/main/java/dev/pcvolkmer/onco/datamapper/ResultSet.java
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@@ -20,6 +20,7 @@
package dev.pcvolkmer.onco.datamapper;
import dev.pcvolkmer.mv64e.mtb.Reference;
import dev.pcvolkmer.onco.datamapper.exceptions.DataAccessException;
import java.time.LocalDate;
@@ -62,6 +63,22 @@ public class ResultSet {
return procedureId;
}
/**
* Get the id
*
* @return The procedures id
*/
public Reference getPatientReference() {
if (this.getString("patienten_id") == null) {
throw new DataAccessException("No patient id found");
}
return Reference.builder()
.id(this.getString("patienten_id"))
// Use "Patient" since Onkostar only provides patient data
.type("Patient")
.build();
}
/**
* Get column value as String and cast value if possible
*

3
src/main/java/dev/pcvolkmer/onco/datamapper/datacatalogues/AbstractDataCatalogue.java
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@@ -53,7 +53,8 @@ public abstract class AbstractDataCatalogue implements DataCatalogue {
public ResultSet getById(int id) {
var result = this.jdbcTemplate.queryForList(
String.format(
"SELECT * FROM %s JOIN prozedur ON (prozedur.id = %s.id) WHERE geloescht = 0 AND prozedur.id = ?",
"SELECT patient.patienten_id, %s.*, prozedur.* FROM %s JOIN prozedur ON (prozedur.id = %s.id) JOIN patient ON (patient.id = prozedur.patient_id) WHERE geloescht = 0 AND prozedur.id = ?",
getTableName(),
getTableName(),
getTableName()
),

3
src/main/java/dev/pcvolkmer/onco/datamapper/datacatalogues/AbstractSubformDataCatalogue.java
View File

@@ -49,7 +49,8 @@ public abstract class AbstractSubformDataCatalogue extends AbstractDataCatalogue
public List<ResultSet> getAllByParentId(int id) {
return this.jdbcTemplate.queryForList(
String.format(
"SELECT * FROM %s JOIN prozedur ON (prozedur.id = %s.id) WHERE geloescht = 0 AND hauptprozedur_id = ?",
"SELECT patient.patienten_id, %s.*, prozedur.* FROM %s JOIN prozedur ON (prozedur.id = %s.id) JOIN patient ON (patient.id = prozedur.patient_id) WHERE geloescht = 0 AND hauptprozedur_id = ?",
getTableName(),
getTableName(),
getTableName()
),

4
src/main/java/dev/pcvolkmer/onco/datamapper/mapper/EinzelempfehlungProzedurDataMapper.java
View File

@@ -32,8 +32,6 @@ import java.util.Arrays;
import java.util.List;
import java.util.stream.Collectors;
import static dev.pcvolkmer.onco.datamapper.mapper.MapperUtils.getPatientReference;
/**
* Mapper class to load and map diagnosis data from database table 'dk_dnpm_einzelempfehlung'
*
@@ -50,7 +48,7 @@ public class EinzelempfehlungProzedurDataMapper extends AbstractEinzelempfehlung
protected ProcedureRecommendation map(ResultSet resultSet) {
var resultBuilder = ProcedureRecommendation.builder()
.id(resultSet.getString("id"))
.patient(getPatientReference(resultSet.getString("patient_id")))
.patient(resultSet.getPatientReference())
// TODO Fix id?
.reason(Reference.builder().id(resultSet.getString("id")).build())
.issuedOn(resultSet.getDate("datum"))

4
src/main/java/dev/pcvolkmer/onco/datamapper/mapper/EinzelempfehlungStudieDataMapper.java
View File

@@ -28,8 +28,6 @@ import dev.pcvolkmer.onco.datamapper.datacatalogues.EinzelempfehlungCatalogue;
import java.util.List;
import java.util.stream.Collectors;
import static dev.pcvolkmer.onco.datamapper.mapper.MapperUtils.getPatientReference;
/**
* Mapper class to load and map diagnosis data from database table 'dk_dnpm_einzelempfehlung'
*
@@ -46,7 +44,7 @@ public class EinzelempfehlungStudieDataMapper extends AbstractEinzelempfehlungDa
protected MtbStudyEnrollmentRecommendation map(ResultSet resultSet) {
return MtbStudyEnrollmentRecommendation.builder()
.id(resultSet.getString("id"))
.patient(getPatientReference(resultSet.getString("patient_id")))
.patient(resultSet.getPatientReference())
// TODO Fix id?
.reason(Reference.builder().id(resultSet.getString("id")).build())
.issuedOn(resultSet.getDate("datum"))

4
src/main/java/dev/pcvolkmer/onco/datamapper/mapper/EinzelempfehlungWirkstoffDataMapper.java
View File

@@ -30,8 +30,6 @@ import java.util.Arrays;
import java.util.List;
import java.util.stream.Collectors;
import static dev.pcvolkmer.onco.datamapper.mapper.MapperUtils.getPatientReference;
/**
* Mapper class to load and map diagnosis data from database table 'dk_dnpm_einzelempfehlung'
*
@@ -54,7 +52,7 @@ public class EinzelempfehlungWirkstoffDataMapper extends AbstractEinzelempfehlun
protected MtbMedicationRecommendation map(ResultSet resultSet) {
var resultBuilder = MtbMedicationRecommendation.builder()
.id(resultSet.getString("id"))
.patient(getPatientReference(resultSet.getString("patient_id")))
.patient(resultSet.getPatientReference())
// TODO Fix id?
.reason(Reference.builder().id(resultSet.getString("id")).build())
.issuedOn(resultSet.getDate("datum"))

4
src/main/java/dev/pcvolkmer/onco/datamapper/mapper/KpaDiagnosisDataMapper.java
View File

@@ -32,8 +32,6 @@ import java.util.List;
import java.util.Objects;
import java.util.stream.Collectors;
import static dev.pcvolkmer.onco.datamapper.mapper.MapperUtils.getPatientReference;
/**
* Mapper class to load and map diagnosis data from database table 'dk_dnpm_kpa'
*
@@ -72,7 +70,7 @@ public class KpaDiagnosisDataMapper implements DataMapper<MtbDiagnosis> {
var builder = MtbDiagnosis.builder();
builder
.id(data.getString("id"))
.patient(getPatientReference(data.getString("patient_id")))
.patient(data.getPatientReference())
.code(
Coding.builder()
.code(data.getString("icd10"))

6
src/main/java/dev/pcvolkmer/onco/datamapper/mapper/KpaEcogDataMapper.java
View File

@@ -32,8 +32,6 @@ import java.util.Comparator;
import java.util.List;
import java.util.stream.Collectors;
import static dev.pcvolkmer.onco.datamapper.mapper.MapperUtils.getPatientReference;
/**
* Mapper class to load and map prozedur data from database table 'dk_dnpm_uf_ecog'
*
@@ -49,7 +47,7 @@ public class KpaEcogDataMapper extends AbstractSubformDataMapper<PerformanceStat
/**
* Loads and maps Prozedur related by database id
*
* @param id The database id of the procedure data set
* @param id The patient id of the procedure data set
* @return The loaded data set
*/
@Override
@@ -72,7 +70,7 @@ public class KpaEcogDataMapper extends AbstractSubformDataMapper<PerformanceStat
var builder = PerformanceStatus.builder();
builder
.id(resultSet.getId().toString())
.patient(getPatientReference(resultSet.getString("patient_id")))
.patient(resultSet.getPatientReference())
.effectiveDate(resultSet.getDate("datum"))
.value(getEcogCoding(resultSet.getString("ecog")))
;

4
src/main/java/dev/pcvolkmer/onco/datamapper/mapper/KpaProzedurDataMapper.java
View File

@@ -29,8 +29,6 @@ import dev.pcvolkmer.onco.datamapper.datacatalogues.ProzedurCatalogue;
import java.util.List;
import static dev.pcvolkmer.onco.datamapper.mapper.MapperUtils.getPatientReference;
/**
* Mapper class to load and map prozedur data from database table 'dk_dnpm_uf_prozedur'
*
@@ -66,7 +64,7 @@ public class KpaProzedurDataMapper extends AbstractKpaTherapieverlaufDataMapper<
var builder = OncoProcedure.builder();
builder
.id(resultSet.getString("id"))
.patient(getPatientReference(resultSet.getString("patient_id")))
.patient(resultSet.getPatientReference())
.basedOn(Reference.builder().id(diseases.get(0).getString("id")).build())
.recordedOn(resultSet.getDate("erfassungsdatum"))
.therapyLine(resultSet.getLong("therapielinie"))

4
src/main/java/dev/pcvolkmer/onco/datamapper/mapper/KpaTherapielinieDataMapper.java
View File

@@ -29,8 +29,6 @@ import dev.pcvolkmer.onco.datamapper.datacatalogues.TherapielinieCatalogue;
import java.util.List;
import static dev.pcvolkmer.onco.datamapper.mapper.MapperUtils.getPatientReference;
/**
* Mapper class to load and map prozedur data from database table 'dk_dnpm_therapielinie'
*
@@ -66,7 +64,7 @@ public class KpaTherapielinieDataMapper extends AbstractKpaTherapieverlaufDataMa
var builder = MtbSystemicTherapy.builder();
builder
.id(resultSet.getString("id"))
.patient(getPatientReference(resultSet.getString("patient_id")))
.patient(resultSet.getPatientReference())
.basedOn(
Reference.builder()
.id(resultSet.getString("ref_einzelempfehlung"))

4
src/main/java/dev/pcvolkmer/onco/datamapper/mapper/KpaVerwandteDataMapper.java
View File

@@ -29,8 +29,6 @@ import dev.pcvolkmer.onco.datamapper.datacatalogues.VerwandteCatalogue;
import java.util.Arrays;
import java.util.stream.Collectors;
import static dev.pcvolkmer.onco.datamapper.mapper.MapperUtils.getPatientReference;
/**
* Mapper class to load and map prozedur data from database table 'dk_dnpm_uf_verwandte'
*
@@ -60,7 +58,7 @@ public class KpaVerwandteDataMapper extends AbstractSubformDataMapper<FamilyMemb
var builder = FamilyMemberHistory.builder();
builder
.id(resultSet.getId().toString())
.patient(getPatientReference(resultSet.getString("patient_id")))
.patient(resultSet.getPatientReference())
.relationship(
getFamilyMemberHistoryRelationshipTypeCoding(resultSet.getString("verwandtschaftsgrad"))
)

10
src/main/java/dev/pcvolkmer/onco/datamapper/mapper/KpaVorbefundeDataMapper.java
View File

@@ -20,21 +20,13 @@
package dev.pcvolkmer.onco.datamapper.mapper;
import dev.pcvolkmer.mv64e.mtb.EcogCoding;
import dev.pcvolkmer.mv64e.mtb.EcogCodingCode;
import dev.pcvolkmer.mv64e.mtb.PerformanceStatus;
import dev.pcvolkmer.mv64e.mtb.PriorDiagnosticReport;
import dev.pcvolkmer.onco.datamapper.ResultSet;
import dev.pcvolkmer.onco.datamapper.datacatalogues.EcogCatalogue;
import java.io.IOException;
import java.util.Arrays;
import java.util.Comparator;
import java.util.List;
import java.util.stream.Collectors;
import static dev.pcvolkmer.onco.datamapper.mapper.MapperUtils.getPatientReference;
/**
* Mapper class to load and map prozedur data from database table 'dk_dnpm_vorbefunde'
*
@@ -72,7 +64,7 @@ public class KpaVorbefundeDataMapper extends AbstractSubformDataMapper<PriorDiag
var builder = PriorDiagnosticReport.builder();
builder
.id(resultSet.getId().toString())
.patient(getPatientReference(resultSet.getString("patient_id")))
.patient(resultSet.getPatientReference())
.issuedOn(resultSet.getDate("datum"))
.results(List.of(resultSet.getString("ecog")))
;

50
src/main/java/dev/pcvolkmer/onco/datamapper/mapper/MapperUtils.java
View File

@@ -1,50 +0,0 @@
/*
* This file is part of mv64e-onkostar-data
*
* Copyright (C) 2025 Paul-Christian Volkmer
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU Lesser General Public License as published by
* the Free Software Foundation, either version 3 of the License, or
* (at your option) any later version.
*
* This program is distributed in the hope that it will be useful,
* but WITHOUT ANY WARRANTY; without even the implied warranty of
* MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
* GNU Lesser General Public License for more details.
*
* You should have received a copy of the GNU Lesser General Public License
* along with this program. If not, see <http://www.gnu.org/licenses/>.
*
*/
package dev.pcvolkmer.onco.datamapper.mapper;
import dev.pcvolkmer.mv64e.mtb.Reference;
import dev.pcvolkmer.onco.datamapper.exceptions.DataAccessException;
/**
* Utility methods to be used in mappers
*/
public class MapperUtils {
private MapperUtils() {
}
/**
* Get Patient Reference based on default column name 'patient_id'
*
* @return The patient reference
*/
public static Reference getPatientReference(String patientId) {
if (patientId == null) {
throw new DataAccessException("No patient id found");
}
return Reference.builder()
.id(patientId)
// Use "Patient" since Onkostar only provides patient data
.type("Patient")
.build();
}
}

4
src/main/java/dev/pcvolkmer/onco/datamapper/mapper/MolekulargenetikToSpecimenDataMapper.java
View File

@@ -29,8 +29,6 @@ import java.util.List;
import java.util.Objects;
import java.util.stream.Collectors;
import static dev.pcvolkmer.onco.datamapper.mapper.MapperUtils.getPatientReference;
/**
* Mapper class to load and map patient data from database table 'dk_molekulargenetik'
*
@@ -76,7 +74,7 @@ public class MolekulargenetikToSpecimenDataMapper implements DataMapper<TumorSpe
var builder = TumorSpecimen.builder();
builder
.id(data.getString("id"))
.patient(getPatientReference(data.getString("patient_id")))
.patient(data.getPatientReference())
.type(getTumorSpecimenCoding(data.getString("materialfixierung")))
.collection(getCollection(data))
// TODO add diagnosis later

4
src/main/java/dev/pcvolkmer/onco/datamapper/mapper/MtbEpisodeDataMapper.java
View File

@@ -28,8 +28,6 @@ import dev.pcvolkmer.onco.datamapper.datacatalogues.KpaCatalogue;
import java.util.List;
import static dev.pcvolkmer.onco.datamapper.mapper.MapperUtils.getPatientReference;
/**
* Mapper class to load and map patient data from database table 'dk_dnpm_kpa'
*
@@ -63,7 +61,7 @@ public class MtbEpisodeDataMapper implements DataMapper<MtbEpisodeOfCare> {
var builder = MtbEpisodeOfCare.builder();
builder
.id(kpaData.getString("id"))
.patient(getPatientReference(kpaData.getString("patient_id")))
.patient(kpaData.getPatientReference())
.diagnoses(
List.of(
Reference.builder()

15
src/main/java/dev/pcvolkmer/onco/datamapper/mapper/TherapieplanDataMapper.java
View File

@@ -22,15 +22,16 @@ package dev.pcvolkmer.onco.datamapper.mapper;
import dev.pcvolkmer.mv64e.mtb.*;
import dev.pcvolkmer.onco.datamapper.PropertyCatalogue;
import dev.pcvolkmer.onco.datamapper.datacatalogues.*;
import dev.pcvolkmer.onco.datamapper.datacatalogues.EinzelempfehlungCatalogue;
import dev.pcvolkmer.onco.datamapper.datacatalogues.RebiopsieCatalogue;
import dev.pcvolkmer.onco.datamapper.datacatalogues.ReevaluationCatalogue;
import dev.pcvolkmer.onco.datamapper.datacatalogues.TherapieplanCatalogue;
import java.io.IOException;
import java.util.Arrays;
import java.util.List;
import java.util.stream.Collectors;
import static dev.pcvolkmer.onco.datamapper.mapper.MapperUtils.getPatientReference;
/**
* Mapper class to load and map patient data from database table 'dk_dnpm_therapieplan'
*
@@ -78,7 +79,7 @@ public class TherapieplanDataMapper implements DataMapper<MtbCarePlan> {
var builder = MtbCarePlan.builder();
builder
.id(therapieplanData.getString("id"))
.patient(getPatientReference(therapieplanData.getString("patient_id")))
.patient(therapieplanData.getPatientReference())
.issuedOn(therapieplanData.getDate("datum"))
.histologyReevaluationRequests(getHistologyReevaluationRequests(id))
.rebiopsyRequests(
@@ -125,7 +126,7 @@ public class TherapieplanDataMapper implements DataMapper<MtbCarePlan> {
builder.geneticCounselingRecommendation(
GeneticCounselingRecommendation.builder()
.id(therapieplanData.getString("id"))
.patient(getPatientReference(therapieplanData.getString("patient_id")))
.patient(therapieplanData.getPatientReference())
.issuedOn(therapieplanData.getDate("datum_tk_humangenber"))
.reason(
getGeneticCounselingRecommendationReasonCoding(
@@ -177,7 +178,7 @@ public class TherapieplanDataMapper implements DataMapper<MtbCarePlan> {
.map(resultSet ->
RebiopsyRequest.builder()
.id(resultSet.getString("id"))
.patient(getPatientReference(resultSet.getString("patient_id")))
.patient(resultSet.getPatientReference())
.issuedOn(resultSet.getDate("datum"))
.tumorEntity(diagnosisReference)
.build()
@@ -190,7 +191,7 @@ public class TherapieplanDataMapper implements DataMapper<MtbCarePlan> {
.map(resultSet ->
HistologyReevaluationRequest.builder()
.id(resultSet.getString("id"))
.patient(getPatientReference(resultSet.getString("patient_id")))
.patient(resultSet.getPatientReference())
.issuedOn(resultSet.getDate("datum"))
.specimen(Reference.builder().id(resultSet.getString("ref_molekulargenetik")).build())
.build()

4
src/test/java/dev/pcvolkmer/onco/datamapper/datacatalogues/EcogCatalogueTest.java
View File

@@ -61,7 +61,7 @@ class EcogCatalogueTest {
verify(this.jdbcTemplate).queryForList(captor.capture(), anyInt());
assertThat(captor.getValue())
.isEqualTo("SELECT * FROM dk_dnpm_uf_ecog JOIN prozedur ON (prozedur.id = dk_dnpm_uf_ecog.id) WHERE geloescht = 0 AND prozedur.id = ?");
.isEqualTo("SELECT patient.patienten_id, dk_dnpm_uf_ecog.*, prozedur.* FROM dk_dnpm_uf_ecog JOIN prozedur ON (prozedur.id = dk_dnpm_uf_ecog.id) JOIN patient ON (patient.id = prozedur.patient_id) WHERE geloescht = 0 AND prozedur.id = ?");
}
@Test
@@ -76,7 +76,7 @@ class EcogCatalogueTest {
verify(this.jdbcTemplate).queryForList(captor.capture(), anyInt());
assertThat(captor.getValue())
.isEqualTo("SELECT * FROM dk_dnpm_uf_ecog JOIN prozedur ON (prozedur.id = dk_dnpm_uf_ecog.id) WHERE geloescht = 0 AND hauptprozedur_id = ?");
.isEqualTo("SELECT patient.patienten_id, dk_dnpm_uf_ecog.*, prozedur.* FROM dk_dnpm_uf_ecog JOIN prozedur ON (prozedur.id = dk_dnpm_uf_ecog.id) JOIN patient ON (patient.id = prozedur.patient_id) WHERE geloescht = 0 AND hauptprozedur_id = ?");
}
}

4
src/test/java/dev/pcvolkmer/onco/datamapper/datacatalogues/EinzelempfehlungCatalogueTest.java
View File

@@ -61,7 +61,7 @@ class EinzelempfehlungCatalogueTest {
verify(this.jdbcTemplate).queryForList(captor.capture(), anyInt());
assertThat(captor.getValue())
.isEqualTo("SELECT * FROM dk_dnpm_uf_einzelempfehlung JOIN prozedur ON (prozedur.id = dk_dnpm_uf_einzelempfehlung.id) WHERE geloescht = 0 AND prozedur.id = ?");
.isEqualTo("SELECT patient.patienten_id, dk_dnpm_uf_einzelempfehlung.*, prozedur.* FROM dk_dnpm_uf_einzelempfehlung JOIN prozedur ON (prozedur.id = dk_dnpm_uf_einzelempfehlung.id) JOIN patient ON (patient.id = prozedur.patient_id) WHERE geloescht = 0 AND prozedur.id = ?");
}
@Test
@@ -76,7 +76,7 @@ class EinzelempfehlungCatalogueTest {
verify(this.jdbcTemplate).queryForList(captor.capture(), anyInt());
assertThat(captor.getValue())
.isEqualTo("SELECT * FROM dk_dnpm_uf_einzelempfehlung JOIN prozedur ON (prozedur.id = dk_dnpm_uf_einzelempfehlung.id) WHERE geloescht = 0 AND hauptprozedur_id = ?");
.isEqualTo("SELECT patient.patienten_id, dk_dnpm_uf_einzelempfehlung.*, prozedur.* FROM dk_dnpm_uf_einzelempfehlung JOIN prozedur ON (prozedur.id = dk_dnpm_uf_einzelempfehlung.id) JOIN patient ON (patient.id = prozedur.patient_id) WHERE geloescht = 0 AND hauptprozedur_id = ?");
}
}

4
src/test/java/dev/pcvolkmer/onco/datamapper/datacatalogues/HistologieCatalogueTest.java
View File

@@ -61,7 +61,7 @@ class HistologieCatalogueTest {
verify(this.jdbcTemplate).queryForList(captor.capture(), anyInt());
assertThat(captor.getValue())
.isEqualTo("SELECT * FROM dk_dnpm_uf_histologie JOIN prozedur ON (prozedur.id = dk_dnpm_uf_histologie.id) WHERE geloescht = 0 AND prozedur.id = ?");
.isEqualTo("SELECT patient.patienten_id, dk_dnpm_uf_histologie.*, prozedur.* FROM dk_dnpm_uf_histologie JOIN prozedur ON (prozedur.id = dk_dnpm_uf_histologie.id) JOIN patient ON (patient.id = prozedur.patient_id) WHERE geloescht = 0 AND prozedur.id = ?");
}
@Test
@@ -76,7 +76,7 @@ class HistologieCatalogueTest {
verify(this.jdbcTemplate).queryForList(captor.capture(), anyInt());
assertThat(captor.getValue())
.isEqualTo("SELECT * FROM dk_dnpm_uf_histologie JOIN prozedur ON (prozedur.id = dk_dnpm_uf_histologie.id) WHERE geloescht = 0 AND hauptprozedur_id = ?");
.isEqualTo("SELECT patient.patienten_id, dk_dnpm_uf_histologie.*, prozedur.* FROM dk_dnpm_uf_histologie JOIN prozedur ON (prozedur.id = dk_dnpm_uf_histologie.id) JOIN patient ON (patient.id = prozedur.patient_id) WHERE geloescht = 0 AND hauptprozedur_id = ?");
}
}

2
src/test/java/dev/pcvolkmer/onco/datamapper/datacatalogues/KpaCatalogueTest.java
View File

@@ -63,7 +63,7 @@ class KpaCatalogueTest {
verify(this.jdbcTemplate).queryForList(captor.capture(), anyInt());
assertThat(captor.getValue())
.isEqualTo("SELECT * FROM dk_dnpm_kpa JOIN prozedur ON (prozedur.id = dk_dnpm_kpa.id) WHERE geloescht = 0 AND prozedur.id = ?");
.isEqualTo("SELECT patient.patienten_id, dk_dnpm_kpa.*, prozedur.* FROM dk_dnpm_kpa JOIN prozedur ON (prozedur.id = dk_dnpm_kpa.id) JOIN patient ON (patient.id = prozedur.patient_id) WHERE geloescht = 0 AND prozedur.id = ?");
}
@Test

4
src/test/java/dev/pcvolkmer/onco/datamapper/datacatalogues/MolekulargenetikCatalogueTest.java
View File

@@ -61,7 +61,7 @@ class MolekulargenetikCatalogueTest {
verify(this.jdbcTemplate).queryForList(captor.capture(), anyInt());
assertThat(captor.getValue())
.isEqualTo("SELECT * FROM dk_molekulargenetik JOIN prozedur ON (prozedur.id = dk_molekulargenetik.id) WHERE geloescht = 0 AND prozedur.id = ?");
.isEqualTo("SELECT patient.patienten_id, dk_molekulargenetik.*, prozedur.* FROM dk_molekulargenetik JOIN prozedur ON (prozedur.id = dk_molekulargenetik.id) JOIN patient ON (patient.id = prozedur.patient_id) WHERE geloescht = 0 AND prozedur.id = ?");
}
@Test
@@ -76,7 +76,7 @@ class MolekulargenetikCatalogueTest {
verify(this.jdbcTemplate).queryForList(captor.capture(), anyInt());
assertThat(captor.getValue())
.isEqualTo("SELECT * FROM dk_molekulargenetik JOIN prozedur ON (prozedur.id = dk_molekulargenetik.id) WHERE geloescht = 0 AND hauptprozedur_id = ?");
.isEqualTo("SELECT patient.patienten_id, dk_molekulargenetik.*, prozedur.* FROM dk_molekulargenetik JOIN prozedur ON (prozedur.id = dk_molekulargenetik.id) JOIN patient ON (patient.id = prozedur.patient_id) WHERE geloescht = 0 AND hauptprozedur_id = ?");
}
}

4
src/test/java/dev/pcvolkmer/onco/datamapper/datacatalogues/ProzedurCatalogueTest.java
View File

@@ -61,7 +61,7 @@ class ProzedurCatalogueTest {
verify(this.jdbcTemplate).queryForList(captor.capture(), anyInt());
assertThat(captor.getValue())
.isEqualTo("SELECT * FROM dk_dnpm_uf_prozedur JOIN prozedur ON (prozedur.id = dk_dnpm_uf_prozedur.id) WHERE geloescht = 0 AND prozedur.id = ?");
.isEqualTo("SELECT patient.patienten_id, dk_dnpm_uf_prozedur.*, prozedur.* FROM dk_dnpm_uf_prozedur JOIN prozedur ON (prozedur.id = dk_dnpm_uf_prozedur.id) JOIN patient ON (patient.id = prozedur.patient_id) WHERE geloescht = 0 AND prozedur.id = ?");
}
@Test
@@ -76,7 +76,7 @@ class ProzedurCatalogueTest {
verify(this.jdbcTemplate).queryForList(captor.capture(), anyInt());
assertThat(captor.getValue())
.isEqualTo("SELECT * FROM dk_dnpm_uf_prozedur JOIN prozedur ON (prozedur.id = dk_dnpm_uf_prozedur.id) WHERE geloescht = 0 AND hauptprozedur_id = ?");
.isEqualTo("SELECT patient.patienten_id, dk_dnpm_uf_prozedur.*, prozedur.* FROM dk_dnpm_uf_prozedur JOIN prozedur ON (prozedur.id = dk_dnpm_uf_prozedur.id) JOIN patient ON (patient.id = prozedur.patient_id) WHERE geloescht = 0 AND hauptprozedur_id = ?");
}
}

4
src/test/java/dev/pcvolkmer/onco/datamapper/datacatalogues/RebiopsieCatalogueTest.java
View File

@@ -61,7 +61,7 @@ class RebiopsieCatalogueTest {
verify(this.jdbcTemplate).queryForList(captor.capture(), anyInt());
assertThat(captor.getValue())
.isEqualTo("SELECT * FROM dk_dnpm_uf_rebiopsie JOIN prozedur ON (prozedur.id = dk_dnpm_uf_rebiopsie.id) WHERE geloescht = 0 AND prozedur.id = ?");
.isEqualTo("SELECT patient.patienten_id, dk_dnpm_uf_rebiopsie.*, prozedur.* FROM dk_dnpm_uf_rebiopsie JOIN prozedur ON (prozedur.id = dk_dnpm_uf_rebiopsie.id) JOIN patient ON (patient.id = prozedur.patient_id) WHERE geloescht = 0 AND prozedur.id = ?");
}
@Test
@@ -76,7 +76,7 @@ class RebiopsieCatalogueTest {
verify(this.jdbcTemplate).queryForList(captor.capture(), anyInt());
assertThat(captor.getValue())
.isEqualTo("SELECT * FROM dk_dnpm_uf_rebiopsie JOIN prozedur ON (prozedur.id = dk_dnpm_uf_rebiopsie.id) WHERE geloescht = 0 AND hauptprozedur_id = ?");
.isEqualTo("SELECT patient.patienten_id, dk_dnpm_uf_rebiopsie.*, prozedur.* FROM dk_dnpm_uf_rebiopsie JOIN prozedur ON (prozedur.id = dk_dnpm_uf_rebiopsie.id) JOIN patient ON (patient.id = prozedur.patient_id) WHERE geloescht = 0 AND hauptprozedur_id = ?");
}
}

4
src/test/java/dev/pcvolkmer/onco/datamapper/datacatalogues/ReevaluationCatalogueTest.java
View File

@@ -61,7 +61,7 @@ class ReevaluationCatalogueTest {
verify(this.jdbcTemplate).queryForList(captor.capture(), anyInt());
assertThat(captor.getValue())
.isEqualTo("SELECT * FROM dk_dnpm_uf_reevaluation JOIN prozedur ON (prozedur.id = dk_dnpm_uf_reevaluation.id) WHERE geloescht = 0 AND prozedur.id = ?");
.isEqualTo("SELECT patient.patienten_id, dk_dnpm_uf_reevaluation.*, prozedur.* FROM dk_dnpm_uf_reevaluation JOIN prozedur ON (prozedur.id = dk_dnpm_uf_reevaluation.id) JOIN patient ON (patient.id = prozedur.patient_id) WHERE geloescht = 0 AND prozedur.id = ?");
}
@Test
@@ -76,7 +76,7 @@ class ReevaluationCatalogueTest {
verify(this.jdbcTemplate).queryForList(captor.capture(), anyInt());
assertThat(captor.getValue())
.isEqualTo("SELECT * FROM dk_dnpm_uf_reevaluation JOIN prozedur ON (prozedur.id = dk_dnpm_uf_reevaluation.id) WHERE geloescht = 0 AND hauptprozedur_id = ?");
.isEqualTo("SELECT patient.patienten_id, dk_dnpm_uf_reevaluation.*, prozedur.* FROM dk_dnpm_uf_reevaluation JOIN prozedur ON (prozedur.id = dk_dnpm_uf_reevaluation.id) JOIN patient ON (patient.id = prozedur.patient_id) WHERE geloescht = 0 AND hauptprozedur_id = ?");
}
}

4
src/test/java/dev/pcvolkmer/onco/datamapper/datacatalogues/TherapielinieCatalogueTest.java
View File

@@ -61,7 +61,7 @@ class TherapielinieCatalogueTest {
verify(this.jdbcTemplate).queryForList(captor.capture(), anyInt());
assertThat(captor.getValue())
.isEqualTo("SELECT * FROM dk_dnpm_therapielinie JOIN prozedur ON (prozedur.id = dk_dnpm_therapielinie.id) WHERE geloescht = 0 AND prozedur.id = ?");
.isEqualTo("SELECT patient.patienten_id, dk_dnpm_therapielinie.*, prozedur.* FROM dk_dnpm_therapielinie JOIN prozedur ON (prozedur.id = dk_dnpm_therapielinie.id) JOIN patient ON (patient.id = prozedur.patient_id) WHERE geloescht = 0 AND prozedur.id = ?");
}
@Test
@@ -76,7 +76,7 @@ class TherapielinieCatalogueTest {
verify(this.jdbcTemplate).queryForList(captor.capture(), anyInt());
assertThat(captor.getValue())
.isEqualTo("SELECT * FROM dk_dnpm_therapielinie JOIN prozedur ON (prozedur.id = dk_dnpm_therapielinie.id) WHERE geloescht = 0 AND hauptprozedur_id = ?");
.isEqualTo("SELECT patient.patienten_id, dk_dnpm_therapielinie.*, prozedur.* FROM dk_dnpm_therapielinie JOIN prozedur ON (prozedur.id = dk_dnpm_therapielinie.id) JOIN patient ON (patient.id = prozedur.patient_id) WHERE geloescht = 0 AND hauptprozedur_id = ?");
}
}

2
src/test/java/dev/pcvolkmer/onco/datamapper/datacatalogues/TherapieplanCatalogueTest.java
View File

@@ -61,7 +61,7 @@ class TherapieplanCatalogueTest {
verify(this.jdbcTemplate).queryForList(captor.capture(), anyInt());
assertThat(captor.getValue())
.isEqualTo("SELECT * FROM dk_dnpm_therapieplan JOIN prozedur ON (prozedur.id = dk_dnpm_therapieplan.id) WHERE geloescht = 0 AND prozedur.id = ?");
.isEqualTo("SELECT patient.patienten_id, dk_dnpm_therapieplan.*, prozedur.* FROM dk_dnpm_therapieplan JOIN prozedur ON (prozedur.id = dk_dnpm_therapieplan.id) JOIN patient ON (patient.id = prozedur.patient_id) WHERE geloescht = 0 AND prozedur.id = ?");
}
@Test

4
src/test/java/dev/pcvolkmer/onco/datamapper/datacatalogues/TumorausbreitungCatalogueTest.java
View File

@@ -61,7 +61,7 @@ class TumorausbreitungCatalogueTest {
verify(this.jdbcTemplate).queryForList(captor.capture(), anyInt());
assertThat(captor.getValue())
.isEqualTo("SELECT * FROM dk_dnpm_uf_tumorausbreitung JOIN prozedur ON (prozedur.id = dk_dnpm_uf_tumorausbreitung.id) WHERE geloescht = 0 AND prozedur.id = ?");
.isEqualTo("SELECT patient.patienten_id, dk_dnpm_uf_tumorausbreitung.*, prozedur.* FROM dk_dnpm_uf_tumorausbreitung JOIN prozedur ON (prozedur.id = dk_dnpm_uf_tumorausbreitung.id) JOIN patient ON (patient.id = prozedur.patient_id) WHERE geloescht = 0 AND prozedur.id = ?");
}
@Test
@@ -76,7 +76,7 @@ class TumorausbreitungCatalogueTest {
verify(this.jdbcTemplate).queryForList(captor.capture(), anyInt());
assertThat(captor.getValue())
.isEqualTo("SELECT * FROM dk_dnpm_uf_tumorausbreitung JOIN prozedur ON (prozedur.id = dk_dnpm_uf_tumorausbreitung.id) WHERE geloescht = 0 AND hauptprozedur_id = ?");
.isEqualTo("SELECT patient.patienten_id, dk_dnpm_uf_tumorausbreitung.*, prozedur.* FROM dk_dnpm_uf_tumorausbreitung JOIN prozedur ON (prozedur.id = dk_dnpm_uf_tumorausbreitung.id) JOIN patient ON (patient.id = prozedur.patient_id) WHERE geloescht = 0 AND hauptprozedur_id = ?");
}
}

4
src/test/java/dev/pcvolkmer/onco/datamapper/datacatalogues/TumorgradingCatalogueTest.java
View File

@@ -61,7 +61,7 @@ class TumorgradingCatalogueTest {
verify(this.jdbcTemplate).queryForList(captor.capture(), anyInt());
assertThat(captor.getValue())
.isEqualTo("SELECT * FROM dk_dnpm_uf_tumorgrading JOIN prozedur ON (prozedur.id = dk_dnpm_uf_tumorgrading.id) WHERE geloescht = 0 AND prozedur.id = ?");
.isEqualTo("SELECT patient.patienten_id, dk_dnpm_uf_tumorgrading.*, prozedur.* FROM dk_dnpm_uf_tumorgrading JOIN prozedur ON (prozedur.id = dk_dnpm_uf_tumorgrading.id) JOIN patient ON (patient.id = prozedur.patient_id) WHERE geloescht = 0 AND prozedur.id = ?");
}
@Test
@@ -76,7 +76,7 @@ class TumorgradingCatalogueTest {
verify(this.jdbcTemplate).queryForList(captor.capture(), anyInt());
assertThat(captor.getValue())
.isEqualTo("SELECT * FROM dk_dnpm_uf_tumorgrading JOIN prozedur ON (prozedur.id = dk_dnpm_uf_tumorgrading.id) WHERE geloescht = 0 AND hauptprozedur_id = ?");
.isEqualTo("SELECT patient.patienten_id, dk_dnpm_uf_tumorgrading.*, prozedur.* FROM dk_dnpm_uf_tumorgrading JOIN prozedur ON (prozedur.id = dk_dnpm_uf_tumorgrading.id) JOIN patient ON (patient.id = prozedur.patient_id) WHERE geloescht = 0 AND hauptprozedur_id = ?");
}
}

4
src/test/java/dev/pcvolkmer/onco/datamapper/datacatalogues/VerwandteCatalogueTest.java
View File

@@ -61,7 +61,7 @@ class VerwandteCatalogueTest {
verify(this.jdbcTemplate).queryForList(captor.capture(), anyInt());
assertThat(captor.getValue())
.isEqualTo("SELECT * FROM dk_dnpm_uf_verwandte JOIN prozedur ON (prozedur.id = dk_dnpm_uf_verwandte.id) WHERE geloescht = 0 AND prozedur.id = ?");
.isEqualTo("SELECT patient.patienten_id, dk_dnpm_uf_verwandte.*, prozedur.* FROM dk_dnpm_uf_verwandte JOIN prozedur ON (prozedur.id = dk_dnpm_uf_verwandte.id) JOIN patient ON (patient.id = prozedur.patient_id) WHERE geloescht = 0 AND prozedur.id = ?");
}
@Test
@@ -76,7 +76,7 @@ class VerwandteCatalogueTest {
verify(this.jdbcTemplate).queryForList(captor.capture(), anyInt());
assertThat(captor.getValue())
.isEqualTo("SELECT * FROM dk_dnpm_uf_verwandte JOIN prozedur ON (prozedur.id = dk_dnpm_uf_verwandte.id) WHERE geloescht = 0 AND hauptprozedur_id = ?");
.isEqualTo("SELECT patient.patienten_id, dk_dnpm_uf_verwandte.*, prozedur.* FROM dk_dnpm_uf_verwandte JOIN prozedur ON (prozedur.id = dk_dnpm_uf_verwandte.id) JOIN patient ON (patient.id = prozedur.patient_id) WHERE geloescht = 0 AND hauptprozedur_id = ?");
}
}

4
src/test/java/dev/pcvolkmer/onco/datamapper/datacatalogues/VorbefundeCatalogueTest.java
View File

@@ -61,7 +61,7 @@ class VorbefundeCatalogueTest {
verify(this.jdbcTemplate).queryForList(captor.capture(), anyInt());
assertThat(captor.getValue())
.isEqualTo("SELECT * FROM dk_dnpm_uf_vorbefunde JOIN prozedur ON (prozedur.id = dk_dnpm_uf_vorbefunde.id) WHERE geloescht = 0 AND prozedur.id = ?");
.isEqualTo("SELECT patient.patienten_id, dk_dnpm_uf_vorbefunde.*, prozedur.* FROM dk_dnpm_uf_vorbefunde JOIN prozedur ON (prozedur.id = dk_dnpm_uf_vorbefunde.id) JOIN patient ON (patient.id = prozedur.patient_id) WHERE geloescht = 0 AND prozedur.id = ?");
}
@Test
@@ -76,7 +76,7 @@ class VorbefundeCatalogueTest {
verify(this.jdbcTemplate).queryForList(captor.capture(), anyInt());
assertThat(captor.getValue())
.isEqualTo("SELECT * FROM dk_dnpm_uf_vorbefunde JOIN prozedur ON (prozedur.id = dk_dnpm_uf_vorbefunde.id) WHERE geloescht = 0 AND hauptprozedur_id = ?");
.isEqualTo("SELECT patient.patienten_id, dk_dnpm_uf_vorbefunde.*, prozedur.* FROM dk_dnpm_uf_vorbefunde JOIN prozedur ON (prozedur.id = dk_dnpm_uf_vorbefunde.id) JOIN patient ON (patient.id = prozedur.patient_id) WHERE geloescht = 0 AND hauptprozedur_id = ?");
}
}

5
src/test/java/dev/pcvolkmer/onco/datamapper/mapper/KpaDiagnosisDataMapperTest.java
View File

@@ -72,6 +72,9 @@ class KpaDiagnosisDataMapperTest {
@Test
void shouldCreateDiagnosis(@Mock ResultSet resultSet) {
doAnswer(invocationOnMock -> Reference.builder().id(testData().get("patienten_id").toString()).type("Patient").build())
.when(resultSet).getPatientReference();
doAnswer(invocationOnMock -> {
var columnName = invocationOnMock.getArgument(0, String.class);
return testData().get(columnName);
@@ -97,7 +100,7 @@ class KpaDiagnosisDataMapperTest {
return Map.of(
"id", "1",
"icd10", "F79.9",
"patient_id", "42"
"patienten_id", "42"
);
}

5
src/test/java/dev/pcvolkmer/onco/datamapper/mapper/KpaEcogDataMapperTest.java
View File

@@ -60,11 +60,14 @@ class KpaEcogDataMapperTest {
void shouldMapResultSet(@Mock ResultSet resultSet) {
var testData = Map.of(
"id", "1",
"patient_id", "42",
"patienten_id", "42",
"datum", new java.sql.Date(Date.from(Instant.parse("2000-01-01T12:00:00Z")).getTime()),
"ecog", "1"
);
doAnswer(invocationOnMock -> Reference.builder().id(testData.get("patienten_id").toString()).type("Patient").build())
.when(resultSet).getPatientReference();
doAnswer(invocationOnMock -> {
var columnName = invocationOnMock.getArgument(0, String.class);
return testData.get(columnName);

5
src/test/java/dev/pcvolkmer/onco/datamapper/mapper/KpaProzedurDataMapperTest.java
View File

@@ -71,9 +71,12 @@ class KpaProzedurDataMapperTest {
"statusgrund", "patient-death",
"therapielinie", 1L,
"typ", "surgery",
"patient_id", "42"
"patienten_id", "42"
);
doAnswer(invocationOnMock -> Reference.builder().id(testData.get("patienten_id").toString()).type("Patient").build())
.when(resultSet).getPatientReference();
doAnswer(invocationOnMock -> {
var columnName = invocationOnMock.getArgument(0, String.class);
return testData.get(columnName);

5
src/test/java/dev/pcvolkmer/onco/datamapper/mapper/KpaTherapielinieDataMapperTest.java
View File

@@ -70,9 +70,12 @@ class KpaTherapielinieDataMapperTest {
"intention", "S",
"status", "stopped",
"statusgrund", "patient-death",
"patient_id", "42"
"patienten_id", "42"
);
doAnswer(invocationOnMock -> Reference.builder().id(testData.get("patienten_id").toString()).type("Patient").build())
.when(resultSet).getPatientReference();
doAnswer(invocationOnMock -> {
var columnName = invocationOnMock.getArgument(0, String.class);
return testData.get(columnName);

5
src/test/java/dev/pcvolkmer/onco/datamapper/mapper/KpaVerwandteDataMapperTest.java
View File

@@ -58,10 +58,13 @@ class KpaVerwandteDataMapperTest {
void shouldMapResultSet(@Mock ResultSet resultSet) {
var testData = Map.of(
"id", "1",
"patient_id", "42",
"patienten_id", "42",
"verwandtschaftsgrad", "EXT"
);
doAnswer(invocationOnMock -> Reference.builder().id(testData.get("patienten_id")).type("Patient").build())
.when(resultSet).getPatientReference();
doAnswer(invocationOnMock -> {
var columnName = invocationOnMock.getArgument(0, String.class);
return testData.get(columnName);

10
src/test/java/dev/pcvolkmer/onco/datamapper/mapper/MolekulargenetikToSpecimenDataMapperTest.java
View File

@@ -111,7 +111,7 @@ class MolekulargenetikToSpecimenDataMapperTest {
return ResultSet.from(
Map.of(
"id", id,
"patient_id", 4711,
"patienten_id", 4711,
"entnahmemethode", "B",
"probenmaterial", "T"
)
@@ -164,7 +164,7 @@ class MolekulargenetikToSpecimenDataMapperTest {
return ResultSet.from(
Map.of(
"id", id,
"patient_id", 4711,
"patienten_id", 4711,
"entnahmemethode", "B",
"probenmaterial", "T"
)
@@ -201,7 +201,7 @@ class MolekulargenetikToSpecimenDataMapperTest {
return ResultSet.from(
Map.of(
"id", id,
"patient_id", 4711,
"patienten_id", 4711,
"materialfixierung", value,
"entnahmemethode", "B",
"probenmaterial", "T"
@@ -278,7 +278,7 @@ class MolekulargenetikToSpecimenDataMapperTest {
return ResultSet.from(
Map.of(
"id", id,
"patient_id", 4711,
"patienten_id", 4711,
"entnahmemethode", value,
"probenmaterial", "T"
)
@@ -348,7 +348,7 @@ class MolekulargenetikToSpecimenDataMapperTest {
return ResultSet.from(
Map.of(
"id", id,
"patient_id", 4711,
"patienten_id", 4711,
"entnahmemethode", "B",
"probenmaterial", value
)

2
src/test/java/dev/pcvolkmer/onco/datamapper/mapper/MtbEpisodeDataMapperTest.java
View File

@@ -62,7 +62,7 @@ class MtbEpisodeDataMapperTest {
void shouldMapData() {
final Map<String, Object> kpaData = Map.of(
"id", 4711,
"patient_id", 42,
"patienten_id", 42,
"anmeldedatummtb", new java.sql.Date(Date.from(Instant.parse("2025-06-28T12:00:00Z")).getTime())
);

11
src/test/java/dev/pcvolkmer/onco/datamapper/mapper/TherapieplanDataMapperTest.java
View File

@@ -78,13 +78,16 @@ class TherapieplanDataMapperTest {
void shouldCreateCarePlan(@Mock ResultSet resultSet) {
final var testData = Map.of(
"id", "1",
"patient_id", "42",
"patienten_id", "42",
"wirkstoffe_json", "[{\"code\":\"\",\"name\":\"PARP-Inhibierung\",\"system\":\"UNREGISTERED\"}]",
"protokollauszug", "Das ist ein Protokollauszug",
"mit_einzelempfehlung", true,
"empfehlungskategorie", "systemisch"
);
doAnswer(invocationOnMock -> Reference.builder().id(testData.get("patienten_id").toString()).type("Patient").build())
.when(resultSet).getPatientReference();
doAnswer(invocationOnMock -> {
var columnName = invocationOnMock.getArgument(0, String.class);
return testData.get(columnName);
@@ -119,7 +122,7 @@ class TherapieplanDataMapperTest {
void shouldSetRecommendationsMissingReason() {
final Map<String, Object> testData = Map.of(
"id", 1,
"patient_id", 42,
"patienten_id", 42,
"status_begruendung", "no-target"
);
@@ -145,7 +148,7 @@ class TherapieplanDataMapperTest {
void shouldSetNoSequencingPerformedReason() {
final Map<String, Object> testData = Map.of(
"id", 1,
"patient_id", 42,
"patienten_id", 42,
"status_begruendung", "non-genetic-cause"
);
@@ -171,7 +174,7 @@ class TherapieplanDataMapperTest {
void shouldMapHumGenBeratung() {
final Map<String, Object> testData = Map.of(
"id", 1,
"patient_id", 42,
"patienten_id", 42,
"humangen_beratung", 1,
"humangen_ber_grund", "other",
"humangen_ber_grund_propcat_version", 1234