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Schreiben von empfangenen Dingen in die Datenbank. BAR_P05

testBranch
Nils Dittberner před 10 roky
committed by Nils Dittberner <nils@dittberner.it>
rodič
80ee328c7a
revize
2a030a18ea
5 změnil soubory, kde provedl 279 přidání a 179 odebrání
Rozdělené zobrazení
Diff Options
Zobrazit statistiky Stáhněte soubor opravy Stáhněte rozdílový soubor
  1. +16
    -15
      src/main/java/de/uniluebeck/mi/projmi6/Main.java
  2. +13
    -0
      src/main/java/de/uniluebeck/mi/projmi6/db/DBHandler.java
  3. +245
    -0
      src/main/java/de/uniluebeck/mi/projmi6/hapi2/HL7Receiver2.java
  4. +0
    -160
      src/main/java/de/uniluebeck/mi/projmi6/hapi2/HL7Recever2.java
  5. +5
    -4
      src/main/java/de/uniluebeck/mi/projmi6/hapi2/HL7Server2.java

+ 16
- 15
src/main/java/de/uniluebeck/mi/projmi6/Main.java Zobrazit soubor

@@ -2,9 +2,7 @@ package de.uniluebeck.mi.projmi6;

import de.uniluebeck.mi.projmi6.controller.MainController;
import de.uniluebeck.mi.projmi6.db.DBHandler;
import de.uniluebeck.mi.projmi6.model.Kasse;
import de.uniluebeck.mi.projmi6.model.Mitarbeiter;
import de.uniluebeck.mi.projmi6.model.OpsCode;
import de.uniluebeck.mi.projmi6.hapi2.HL7Server2;
import javafx.application.Application;
import javafx.beans.property.ReadOnlyStringProperty;
import javafx.collections.FXCollections;
@@ -14,7 +12,6 @@ import javafx.geometry.Insets;
import javafx.geometry.Pos;
import javafx.scene.Parent;
import javafx.scene.Scene;
import javafx.scene.control.ProgressIndicator;
import javafx.scene.image.Image;
import javafx.scene.image.ImageView;
import javafx.scene.layout.Background;
@@ -72,6 +69,11 @@ public class Main extends Application {

Parent root = fxmlLoader.load();

// TODO: Jojo, das muss irgendwie am ende noch geschlossen werden!
HL7Server2 hl7server = new HL7Server2(mainController);
//hl7server.stop();
//hl7server.shutdown();

return root;
}
};
@@ -81,6 +83,14 @@ public class Main extends Application {
*/
private Image icon = new Image("icon.png", true);

/**
* Applications entry point.
*
* @param args Commandline parameters
*/
public static void main(String[] args) {
launch(args);
}

@Override
public void start(Stage primaryStage) {
@@ -117,7 +127,7 @@ public class Main extends Application {
*
* @return the splash screen
*/
public Stage createLoadWindow(ReadOnlyStringProperty progressMessage){
public Stage createLoadWindow(ReadOnlyStringProperty progressMessage) {
Text kis = new Text("KIS");
kis.setFont(Font.font(50));

@@ -127,7 +137,7 @@ public class Main extends Application {
Text progress = new Text();
progress.textProperty().bind(progressMessage);

VBox root = new VBox(gruppe6, new ImageView(icon), kis, progress);
VBox root = new VBox(gruppe6, new ImageView(icon), kis, progress);
root.setSpacing(20);
root.setAlignment(Pos.CENTER);
Scene scene = new Scene(root, 400, 500);
@@ -140,13 +150,4 @@ public class Main extends Application {

return stage;
}

/**
* Applications entry point.
*
* @param args Commandline parameters
*/
public static void main(String[] args) {
launch(args);
}
}

+ 13
- 0
src/main/java/de/uniluebeck/mi/projmi6/db/DBHandler.java Zobrazit soubor

@@ -155,6 +155,7 @@ public class DBHandler {
"`FallID`) " +
"VALUES (?, ?, ?, ?, ?, ?, ?, ?)";
private static final String DELETE_STATHIST = "DELETE FROM `stationshistorie` WHERE `StatHistID` =?";
private static final String SELECT_FALLIDS_BY_PATID = "SELECT `fallid` FROM `fall` WHERE `patientid` =?";

private DBHandler() {

@@ -841,4 +842,16 @@ public class DBHandler {
entry.setSource(rs.getString("source"));
return entry;
}

public static List<Integer> getAlleFallIdsByPatID(int patid) throws SQLException {
PreparedStatement statement = MySqlConnectionFactory.getConnection().prepareStatement(SELECT_FALLIDS_BY_PATID);
statement.setInt(1, patid);
ResultSet rs = statement.executeQuery();

List<Integer> fallids = new ArrayList<>();
while (rs.next()) {
fallids.add(rs.getInt("fallid"));
}
return fallids;
}
}

+ 245
- 0
src/main/java/de/uniluebeck/mi/projmi6/hapi2/HL7Receiver2.java Zobrazit soubor

@@ -0,0 +1,245 @@
package de.uniluebeck.mi.projmi6.hapi2;

import ca.uhn.hl7v2.AcknowledgmentCode;
import ca.uhn.hl7v2.ErrorCode;
import ca.uhn.hl7v2.HL7Exception;
import ca.uhn.hl7v2.model.AbstractMessage;
import ca.uhn.hl7v2.model.Message;
import ca.uhn.hl7v2.model.v251.group.BAR_P05_PROCEDURE;
import ca.uhn.hl7v2.model.v251.group.BAR_P05_VISIT;
import ca.uhn.hl7v2.model.v251.message.ADT_A01;
import ca.uhn.hl7v2.model.v251.message.BAR_P05;
import ca.uhn.hl7v2.model.v251.segment.*;
import ca.uhn.hl7v2.protocol.ReceivingApplication;
import ca.uhn.hl7v2.protocol.ReceivingApplicationException;
import de.uniluebeck.mi.projmi6.controller.MainController;
import de.uniluebeck.mi.projmi6.db.DBHandler;
import de.uniluebeck.mi.projmi6.model.*;

import java.io.IOException;
import java.sql.SQLException;
import java.util.ArrayList;
import java.util.List;
import java.util.Map;

/**
* Created by nils on 20.11.2015.
*/
public class HL7Receiver2<T extends AbstractMessage> implements ReceivingApplication {
private final Class<T> type;
private final MainController mainctrl;

public HL7Receiver2(Class<T> type, MainController mainctrl) {
this.type = type;
this.mainctrl = mainctrl;
}


@Override
public Message processMessage(Message message, Map<String, Object> metadata) throws ReceivingApplicationException, HL7Exception {

if (type == ADT_A01.class) {
return processADT_A01(message, metadata);
}
if (type == BAR_P05.class) {
return processBAR_P05(message, metadata);
}

// TODO: Handle unknown Messages, maybe write to database, send ACK and go on.
try {
return message.generateACK();
} catch (IOException e) {
throw new HL7Exception(e);
}
}

@Override
public boolean canProcess(Message message) {
// TODO: Erstmal alles processen.
return true;
}

private Message generateACK(Message message) throws HL7Exception {
try {
return message.generateACK();
} catch (IOException e) {
throw new HL7Exception(e);
}
}

private Message generateACKWithAR(Message message, String s) throws HL7Exception {
try {
return message.generateACK(AcknowledgmentCode.AR, new HL7Exception(s, ErrorCode.UNKNOWN_KEY_IDENTIFIER));
} catch (IOException e) {
throw new HL7Exception(e);
}
}

private Message processBAR_P05(Message message, Map<String, Object> metadata) throws HL7Exception {
BAR_P05 bar_p05 = (BAR_P05) message;

MSH msh = bar_p05.getMSH();
PID pid = bar_p05.getPID();

int patid = Integer.parseInt(pid.getPatientID().encode());
Patient patient = mainctrl.getStammdaten().getPatienten().stream().filter(p -> p.getPatID() == patid).findFirst().orElse(null);

if (patient == null) {
return generateACKWithAR(message, "Patient nicht gefunden.");
}

List<BAR_P05_VISIT> visits = bar_p05.getVISITAll();

// Ab hier wird es dirty.
for (BAR_P05_VISIT visit : visits) {
PV1 pv1 = visit.getPV1();
int fallid = Integer.parseInt(pv1.getVisitNumber().encode());

List<Integer> fallids = new ArrayList<>();
try {
fallids = DBHandler.getAlleFallIdsByPatID(patient.getPatID());
} catch (SQLException e) {
e.printStackTrace();
}
if (fallids.isEmpty() || !fallids.contains(fallid)) {
return generateACKWithAR(message, "Fall nicht gefunden.");
}

Fall fall = new Fall();
fall.setFallID(fallid);
fall.setPatient(patient);

List<Diagnose> diagnosen = new ArrayList<>();
List<Untersuchung> untersuchungen = new ArrayList<>();

// Station(PV1-3-1), Fachabteilung(PV1-3-4), Aufnahmedatum(PV1-44), Entlassungsdatum(PV1-45), Fallnummer(PV1-19)
Station station = new Station();
station.setStation(pv1.getAssignedPatientLocation().getPointOfCare().encode());
station.setAbteilung(pv1.getAssignedPatientLocation().getFacility().encode());

StationsHistorie hist = new StationsHistorie();
hist.setStationKey(station.getStation());
hist.setAufnahmeDatum(HL7Util2.parseLocalDateTime(pv1.getAdmitDateTime().getTime()));
hist.setEntlassungsDatum(HL7Util2.parseLocalDateTime(pv1.getDischargeDateTime()[0].getTime())); // TODO: null?
hist.setFallID(fallid);

List<DG1> dg1s = visit.getDG1All();
for (DG1 dg1 : dg1s) {
Diagnose diagnose = new Diagnose();
diagnose.setErsteller(99999);
diagnose.setBearbeiter(99999);
diagnose.setFall(fall);

String icd10 = dg1.getDiagnosisCodeDG1().getIdentifier().encode();
Icd10Code icd10code = mainctrl.getStammdaten().getIcd10Codes().stream().filter(i -> i.getCode().equals(icd10)).findFirst().orElse(null);
if (icd10code == null) {
// TODO: Oder einfach ueberspringen?
continue;
// TODO: Behandeln von sonder Codes. K35.9V (Verdacht...)
// return generateACKWithAR(message, "ICD10 Code nicht gefunden.");
}
diagnose.setIcd10code(icd10code);

// Mitarbeiter ID anhand von EinweisenderArzt erkennen.
Mitarbeiter mitarbeiter;
if (dg1.getDiagnosingClinician().length != 0) {
String einweisenderarzt = dg1.getDiagnosingClinician(0).encode(); // Wir holen uns immer den ersten der verantwortlichen Aerzte... // (DG1-16)
mitarbeiter = mainctrl.getStammdaten().getMitarbeiter().stream().filter(m -> m.getEinweisenderArzt().equals(einweisenderarzt)).findFirst().orElse(null);
if (mitarbeiter == null) {
return generateACKWithAR(message, "Mitarbeiter nicht gefunden.");
}
} else {
mitarbeiter = new Mitarbeiter(99999);
}
diagnose.setArzt(mitarbeiter);
// (DG1-6) // TODO: Enum umstellen? Neeee...
String diagart = dg1.getDiagnosisType().encode();
switch (diagart) {
case "A":
diagnose.setDiagArt(DiagArt.EINWEISUNG);
break;
case "F":
diagnose.setDiagArt(DiagArt.ENTLASSUNG);
break;
case "W":
default:
diagnose.setDiagArt(DiagArt.VERDACHT);
}

diagnosen.add(diagnose);
}
List<BAR_P05_PROCEDURE> procedures = visit.getPROCEDUREAll();
for (BAR_P05_PROCEDURE procedure : procedures) {
PR1 pr1 = procedure.getPR1();
Untersuchung untersuchung = new Untersuchung();
untersuchung.setErsteller(99999);
untersuchung.setBearbeiter(99999);
untersuchung.setFall(fall);

String ops = pr1.getProcedureCode().encode();
OpsCode opscode = mainctrl.getStammdaten().getOpsCodes().stream().filter(o -> o.getOpsCode().equals(ops)).findFirst().orElse(null);
if (opscode == null) {
// TODO: Oder einfach ueberspringen?
continue;
// TODO: Behandeln von sonder Codes.
// return generateACKWithAR(message, "OPS Code nicht gefunden.");
}
untersuchung.setOpscode(opscode);

untersuchung.setUntersuchungsdatum(HL7Util2.parseLocalDateTime(pr1.getProcedureDateTime().getTime()));

// Mitarbeiter ID anhand von EinweisenderArzt erkennen.
Mitarbeiter mitarbeiter;
if (pr1.getProcedurePractitioner().length != 0) {
String einweisenderarzt = pr1.getProcedurePractitioner(0).encode(); // Wir holen uns immer den ersten der verantwortlichen Aerzte...
mitarbeiter = mainctrl.getStammdaten().getMitarbeiter().stream().filter(m -> m.getEinweisenderArzt().equals(einweisenderarzt)).findFirst().orElse(null);
if (mitarbeiter == null) {
return generateACKWithAR(message, "Mitarbeiter nicht gefunden.");
}
} else {
mitarbeiter = new Mitarbeiter(99999);
}
untersuchung.setDurchfuehrenderArzt(mitarbeiter);

untersuchungen.add(untersuchung);
}

// Hier jeweils Untersuchung und Diagnose in die Datenbank schreiben.
diagnosen.forEach(d -> {
try {
DBHandler.setDiagnose(d);
} catch (SQLException e) {
e.printStackTrace();
}
});

untersuchungen.forEach(u -> {
try {
DBHandler.setUntersuchung(u, 99999, false);
} catch (SQLException e) {
e.printStackTrace();
}
});
}

// HL7 Nachricht loggen.
try {
String sendind_ip = metadata.get("SENDING_IP").toString();
String sendind_port = metadata.get("SENDING_PORT").toString();
DBHandler.setHL7Nachricht(message.encode(), HL7Util2.parseLocalDateTime(msh.getDateTimeOfMessage().getTime()), sendind_ip + ":" + sendind_port);
} catch (SQLException e) {
e.printStackTrace();
}

return generateACK(message);
}


private Message processADT_A01(Message message, Map<String, Object> metadata) throws HL7Exception {
ADT_A01 adt_a01 = (ADT_A01) message;
System.out.println(adt_a01.toString());

return generateACK(message);
}

}

+ 0
- 160
src/main/java/de/uniluebeck/mi/projmi6/hapi2/HL7Recever2.java Zobrazit soubor

@@ -1,160 +0,0 @@
package de.uniluebeck.mi.projmi6.hapi2;

import ca.uhn.hl7v2.AcknowledgmentCode;
import ca.uhn.hl7v2.ErrorCode;
import ca.uhn.hl7v2.HL7Exception;
import ca.uhn.hl7v2.model.AbstractMessage;
import ca.uhn.hl7v2.model.Message;
import ca.uhn.hl7v2.model.v251.group.BAR_P05_PROCEDURE;
import ca.uhn.hl7v2.model.v251.group.BAR_P05_VISIT;
import ca.uhn.hl7v2.model.v251.message.ADT_A01;
import ca.uhn.hl7v2.model.v251.message.BAR_P05;
import ca.uhn.hl7v2.model.v251.segment.*;
import ca.uhn.hl7v2.protocol.ReceivingApplication;
import ca.uhn.hl7v2.protocol.ReceivingApplicationException;
import de.uniluebeck.mi.projmi6.model.*;

import java.io.IOException;
import java.util.ArrayList;
import java.util.List;
import java.util.Map;

/**
* Created by nils on 20.11.2015.
*/
public class HL7Recever2<T extends AbstractMessage> implements ReceivingApplication {
private final Class<T> type;

public HL7Recever2(Class<T> type) {
this.type = type;
}


@Override
public Message processMessage(Message message, Map<String, Object> metadata) throws ReceivingApplicationException, HL7Exception {

if (type == ADT_A01.class) {
return processADT_A01(message, metadata);
}
if (type == BAR_P05.class) {
return processBAR_P05(message, metadata);
}

// TODO: Handle unknown Messages, maybe write to database, sen ACK and go on.
try {
return message.generateACK();
} catch (IOException e) {
throw new HL7Exception(e);
}
}

@Override
public boolean canProcess(Message message) {
// TODO: Erstmal alles processen.
return true;
}

private Message generateACK(Message message) throws HL7Exception {
try {
return message.generateACK();
} catch (IOException e) {
throw new HL7Exception(e);
}
}

private Message generateACKWithAR(Message message, String s) throws HL7Exception {
try {
return message.generateACK(AcknowledgmentCode.AR, new HL7Exception(s, ErrorCode.TABLE_VALUE_NOT_FOUND));
} catch (IOException e) {
throw new HL7Exception(e);
}
}

private Message processBAR_P05(Message message, Map<String, Object> metadata) throws HL7Exception {
Patient patient = new Patient();
List<Fall> faelle = new ArrayList<>();
List<Untersuchung> ALLE_UNTERSUCHUNGEN = new ArrayList<>();
List<Diagnose> ALLE_DIAGNOSEN = new ArrayList<>();

BAR_P05 bar_p05 = (BAR_P05) message;

MSH msh = bar_p05.getMSH();
PID pid = bar_p05.getPID();

patient.setPatID(Integer.parseInt(pid.getPatientID().encode()));

List<BAR_P05_VISIT> visits = bar_p05.getVISITAll();

// Ab hier wird es dirty.
for (BAR_P05_VISIT visit : visits) {

Fall fall = new Fall();
fall.setPatient(patient);

List<Diagnose> diagnosen = new ArrayList<>();
List<Untersuchung> untersuchungen = new ArrayList<>();

PV1 pv1 = visit.getPV1();
// TODO: Extract Station(PV1-3-1),Fachabteilung(PV1-3-4),Aufnahmedatum(PV1-44),Entlassungsdatum(PV1-45),Fallnummer(PV1-19)
Station station = new Station();
station.setStation(pv1.getAssignedPatientLocation().getPointOfCare().encode());
station.setAbteilung(pv1.getAssignedPatientLocation().getFacility().encode());
StationsHistorie hist = new StationsHistorie();
hist.setStationKey(station.getStation());
hist.setAufnahmeDatum(HL7Util2.parseLocalDateTime(pv1.getAdmitDateTime().getTime()));
hist.setEntlassungsDatum(HL7Util2.parseLocalDateTime(pv1.getDischargeDateTime()[0].getTime()));
fall.setFallID(Integer.parseInt(pv1.getVisitNumber().encode()));

List<DG1> dg1s = visit.getDG1All();
for (DG1 dg1 : dg1s) {
Icd10Code icd10code = new Icd10Code(dg1.getDiagnosisCodeDG1().getIdentifier().encode(), "", 20); // TODO: Version hard gecoded.
// TODO: Mitarbeiter ID anhand von EinweisenderArzt erkennen!
String einweisenderarzt = dg1.getDiagnosingClinician(0).encode(); // TODO: Wir holen uns immer den ersten der verantwortlichen Aerzte...
int mitarbid = 1000; // TODO: SQL: SELECT * FROM Mitarbeiter WHERE einweisenderarzt = ...
Mitarbeiter mitarbeiter = new Mitarbeiter(mitarbid);

Diagnose diagnose = new Diagnose();
diagnose.setIcd10code(icd10code);
diagnose.setArzt(mitarbeiter); // TODO: (DG1-16)
diagnose.setFall(fall);
// diagnose.setDiagArt(); // TODO: (DG1-6) // Enum umstellen????

diagnosen.add(diagnose);
}
List<BAR_P05_PROCEDURE> procedures = visit.getPROCEDUREAll();
for (BAR_P05_PROCEDURE procedure : procedures) {
PR1 pr1 = procedure.getPR1();
Untersuchung untersuchung = new Untersuchung();
untersuchung.setFall(fall);

OpsCode opscode = new OpsCode(pr1.getProcedureCode().encode(), "", 20); // TODO: Version hardcoded...
untersuchung.setOpscode(opscode);
untersuchung.setUntersuchungsdatum(HL7Util2.parseLocalDateTime(pr1.getProcedureDateTime().getTime()));

String einweisenderarzt = pr1.getPr112_ProcedurePractitioner(0).encode(); // TODO: Wieder nur den ersten Arzt..
int mitarbid = 1000; // TODO: Siehe oben
untersuchung.setDurchfuehrenderArzt(new Mitarbeiter(mitarbid));

// TODO: Extract OPS(3), Zeitpunkt(5), Arzt(12)

untersuchungen.add(untersuchung);
}

// TODO: hier jeweils Fall, Untersuchung und Diagnosen in die Datenbank schreiben...
faelle.add(fall);
ALLE_DIAGNOSEN.addAll(diagnosen);
ALLE_UNTERSUCHUNGEN.addAll(untersuchungen);
}

return generateACK(message);
}


private Message processADT_A01(Message message, Map<String, Object> metadata) throws HL7Exception {
ADT_A01 adt_a01 = (ADT_A01) message;
System.out.println(adt_a01.toString());

return generateACK(message);
}

}

+ 5
- 4
src/main/java/de/uniluebeck/mi/projmi6/hapi2/HL7Server2.java Zobrazit soubor

@@ -5,6 +5,7 @@ import ca.uhn.hl7v2.HapiContext;
import ca.uhn.hl7v2.app.HL7Service;
import ca.uhn.hl7v2.model.v251.message.ADT_A01;
import ca.uhn.hl7v2.model.v251.message.BAR_P05;
import de.uniluebeck.mi.projmi6.controller.MainController;

import java.util.concurrent.ArrayBlockingQueue;
import java.util.concurrent.ThreadPoolExecutor;
@@ -20,7 +21,7 @@ public class HL7Server2 {
private final HL7Service server;
private final ThreadPoolExecutor executor;

public HL7Server2() throws InterruptedException {
public HL7Server2(MainController mainctrl) throws InterruptedException {
executor = new ThreadPoolExecutor(10, 100, 30, TimeUnit.SECONDS, new ArrayBlockingQueue<Runnable>(100));
executor.setRejectedExecutionHandler(new ThreadPoolExecutor.CallerRunsPolicy());

@@ -28,8 +29,8 @@ public class HL7Server2 {
context.setExecutorService(executor);
server = context.newServer(PORT, false);

server.registerApplication("ADT", "A01", new HL7Recever2<ADT_A01>(ADT_A01.class));
server.registerApplication("BAR", "P05", new HL7Recever2<BAR_P05>(BAR_P05.class));
server.registerApplication("ADT", "A01", new HL7Receiver2<ADT_A01>(ADT_A01.class, mainctrl));
server.registerApplication("BAR", "P05", new HL7Receiver2<BAR_P05>(BAR_P05.class, mainctrl));

server.registerConnectionListener(new HL7ConnectionListener2());
server.setExceptionHandler(new HL7ExceptionHandler2());
@@ -40,7 +41,7 @@ public class HL7Server2 {

// TODO: Remove, for testing purpose only!
public static void main(String[] args) throws InterruptedException {
HL7Server2 srv = new HL7Server2();
HL7Server2 srv = new HL7Server2(null);
for (; ; ) {

}


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