001package org.hl7.fhir.convertors.misc;
002
003import java.io.FileNotFoundException;
004import java.io.FileOutputStream;
005import java.io.IOException;
006import java.math.BigDecimal;
007import java.util.Calendar;
008import java.util.UUID;
009
010/*
011  Copyright (c) 2011+, HL7, Inc.
012  All rights reserved.
013  
014  Redistribution and use in source and binary forms, with or without modification, 
015  are permitted provided that the following conditions are met:
016    
017   * Redistributions of source code must retain the above copyright notice, this 
018     list of conditions and the following disclaimer.
019   * Redistributions in binary form must reproduce the above copyright notice, 
020     this list of conditions and the following disclaimer in the documentation 
021     and/or other materials provided with the distribution.
022   * Neither the name of HL7 nor the names of its contributors may be used to 
023     endorse or promote products derived from this software without specific 
024     prior written permission.
025  
026  THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND 
027  ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED 
028  WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. 
029  IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, 
030  INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT 
031  NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR 
032  PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, 
033  WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) 
034  ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE 
035  POSSIBILITY OF SUCH DAMAGE.
036  
037 */
038
039
040import org.hl7.fhir.dstu3.formats.IParser.OutputStyle;
041import org.hl7.fhir.dstu3.formats.XmlParser;
042import org.hl7.fhir.dstu3.model.Bundle;
043import org.hl7.fhir.dstu3.model.Bundle.BundleType;
044import org.hl7.fhir.dstu3.model.DateTimeType;
045import org.hl7.fhir.dstu3.model.Observation;
046import org.hl7.fhir.dstu3.model.Observation.ObservationComponentComponent;
047import org.hl7.fhir.dstu3.model.Observation.ObservationStatus;
048import org.hl7.fhir.dstu3.model.Quantity;
049import org.hl7.fhir.dstu3.model.Reference;
050import org.hl7.fhir.dstu3.model.Type;
051import org.hl7.fhir.exceptions.FHIRException;
052import org.hl7.fhir.exceptions.FHIRFormatError;
053import org.hl7.fhir.utilities.Utilities;
054import org.hl7.fhir.utilities.filesystem.ManagedFileAccess;
055
056public class ObservationStatsBuilder {
057
058  public static void main(String[] args) throws IOException, FHIRException {
059    buildVitalSignsSet();
060    buildStatsSeries();
061
062  }
063
064  private static void buildVitalSignsSet() throws IOException, FHIRFormatError {
065    Calendar base = Calendar.getInstance();
066    base.add(Calendar.DAY_OF_MONTH, -1);
067    Bundle b = new Bundle();
068    b.setType(BundleType.COLLECTION);
069    b.setId(UUID.randomUUID().toString().toLowerCase());
070
071    vitals(b, base, 0, 80, 120, 95, 37.1);
072    vitals(b, base, 35, 85, 140, 98, 36.9);
073    vitals(b, base, 53, 75, 110, 96, 36.2);
074    vitals(b, base, 59, 65, 100, 94, 35.5);
075    vitals(b, base, 104, 60, 90, 90, 35.9);
076    vitals(b, base, 109, 65, 100, 92, 36.5);
077    vitals(b, base, 114, 70, 130, 94, 37.5);
078    vitals(b, base, 120, 90, 150, 97, 37.3);
079    vitals(b, base, 130, 95, 133, 97, 37.2);
080    vitals(b, base, 150, 85, 125, 98, 37.1);
081
082    new XmlParser().setOutputStyle(OutputStyle.PRETTY).compose(ManagedFileAccess.outStream(Utilities.path("[tmp]", "vitals.xml")), b);
083  }
084
085  private static void vitals(Bundle b, Calendar base, int minutes, int diastolic, int systolic, int sat, double temp) throws FHIRFormatError {
086    Calendar when = (Calendar) base.clone();
087    when.add(Calendar.MINUTE, minutes);
088
089    baseVitals(b, when, minutes, "sat", "59408-5", "O2 Saturation").setValue(makeQty(sat, "%", "%"));
090    baseVitals(b, when, minutes, "temp", "8310-5", "Body temperature").setValue(makeQty(temp, "\u00b0C", "Cel"));
091    Observation obs = baseVitals(b, when, minutes, "bp", "85354-9", "Blood pressure");
092    component(obs, "8480-6", "Systolic").setValue(makeQty(systolic, "mmhg", "mm[Hg]"));
093    component(obs, "8462-4", "Diastolic").setValue(makeQty(diastolic, "mmhg", "mm[Hg]"));
094
095  }
096
097  private static ObservationComponentComponent component(Observation obs, String lCode, String text) {
098    ObservationComponentComponent comp = obs.addComponent();
099    comp.getCode().setText(text).addCoding().setCode(lCode).setSystem("http://loinc.org");
100    return comp;
101  }
102
103  private static Type makeQty(int sat, String human, String ucum) {
104    Quantity q = new Quantity();
105    q.setCode(ucum);
106    q.setSystem("http://unitsofmeasure.org");
107    q.setUnit(human);
108    q.setValue(new BigDecimal(sat));
109    return q;
110  }
111
112
113  private static Type makeQty(double val, String human, String ucum) {
114    Quantity q = new Quantity();
115    q.setCode(ucum);
116    q.setSystem("http://unitsofmeasure.org");
117    q.setUnit(human);
118    q.setValue(new BigDecimal(val));
119    return q;
120  }
121
122  private static Observation baseVitals(Bundle b, Calendar when, int min, String name, String lCode, String text) throws FHIRFormatError {
123    Observation obs = new Observation();
124    obs.setId("obs-vitals-" + name + "-" + min);
125    obs.setSubject(new Reference().setReference("Patient/123"));
126    obs.setStatus(ObservationStatus.FINAL);
127    obs.setEffective(new DateTimeType(when));
128    obs.addCategory().setText("Vital Signs").addCoding().setSystem("http://hl7.org/fhir/observation-category").setCode("vital-signs").setDisplay("Vital Signs");
129    obs.getCode().setText(text).addCoding().setCode(lCode).setSystem("http://loinc.org");
130    b.addEntry().setFullUrl("http://hl7.org/fhir/Observation/" + obs.getId()).setResource(obs);
131    return obs;
132  }
133
134  /**
135   * @throws FHIRException
136   * @throws IOException
137   * @throws FileNotFoundException
138   */
139  public static void buildStatsSeries() throws FHIRException, IOException, FileNotFoundException {
140    Bundle b = new Bundle();
141    b.setType(BundleType.COLLECTION);
142    b.setId(UUID.randomUUID().toString().toLowerCase());
143
144    addAge(b, 5, 1, "18.3");
145    addAge(b, 5, 2, "18.4");
146    addAge(b, 5, 3, "18.6");
147    addAge(b, 5, 4, "18.8");
148    addAge(b, 5, 5, "19.0");
149    addAge(b, 5, 6, "19.1");
150    addAge(b, 5, 7, "19.3");
151    addAge(b, 5, 8, "19.5");
152    addAge(b, 5, 9, "19.6");
153    addAge(b, 5, 10, "19.8");
154    addAge(b, 5, 11, "20.0");
155    addAge(b, 6, 0, "20.2");
156    addAge(b, 6, 1, "20.3");
157    addAge(b, 6, 2, "20.5");
158    addAge(b, 6, 3, "20.7");
159    addAge(b, 6, 4, "20.9");
160    addAge(b, 6, 5, "21.0");
161    addAge(b, 6, 6, "21.2");
162    addAge(b, 6, 7, "21.4");
163    addAge(b, 6, 8, "21.6");
164    addAge(b, 6, 9, "21.8");
165    addAge(b, 6, 10, "22.0");
166    addAge(b, 6, 11, "22.2");
167    addAge(b, 7, 0, "22.4");
168    addAge(b, 7, 1, "22.6");
169    addAge(b, 7, 2, "22.8");
170    addAge(b, 7, 3, "23.0");
171    addAge(b, 7, 4, "23.2");
172    addAge(b, 7, 5, "23.4");
173    addAge(b, 7, 6, "23.6");
174    addAge(b, 7, 7, "23.9");
175    addAge(b, 7, 8, "24.1");
176    addAge(b, 7, 9, "24.3");
177    addAge(b, 7, 10, "24.5");
178    addAge(b, 7, 11, "24.8");
179    addAge(b, 8, 0, "25.0");
180    addAge(b, 8, 1, "25.3");
181    addAge(b, 8, 2, "25.5");
182    addAge(b, 8, 3, "25.8");
183    addAge(b, 8, 4, "26.0");
184    addAge(b, 8, 5, "26.3");
185    addAge(b, 8, 6, "26.6");
186    addAge(b, 8, 7, "26.8");
187    addAge(b, 8, 8, "27.1");
188    addAge(b, 8, 9, "27.4");
189    addAge(b, 8, 10, "27.6");
190    addAge(b, 8, 11, "27.9");
191    addAge(b, 9, 0, "28.2");
192    addAge(b, 9, 1, "28.5");
193    addAge(b, 9, 2, "28.8");
194    addAge(b, 9, 3, "29.1");
195    addAge(b, 9, 4, "29.4");
196    addAge(b, 9, 5, "29.7");
197    addAge(b, 9, 6, "30.0");
198    addAge(b, 9, 7, "30.3");
199    addAge(b, 9, 8, "30.6");
200    addAge(b, 9, 9, "30.9");
201    addAge(b, 9, 10, "31.2");
202    addAge(b, 9, 11, "31.5");
203    addAge(b, 10, 0, "31.9");
204
205
206    new XmlParser().setOutputStyle(OutputStyle.PRETTY).compose(ManagedFileAccess.outStream(Utilities.path("[tmp]", "obs.xml")), b);
207  }
208
209  private static void addAge(Bundle b, int y, int m, String v) throws FHIRException {
210    Observation obs = new Observation();
211    obs.setId("obs-example-age-weight-" + y + "-" + m);
212    obs.setSubject(new Reference().setReference("Patient/123"));
213    obs.setStatus(ObservationStatus.FINAL);
214    Calendar when = Calendar.getInstance();
215    when.add(Calendar.YEAR, -y);
216    when.add(Calendar.MONTH, m);
217    obs.setEffective(new DateTimeType(when));
218    obs.getCode().addCoding().setCode("29463-7").setSystem("http://loinc.org");
219    obs.setValue(new Quantity());
220    obs.getValueQuantity().setCode("kg");
221    obs.getValueQuantity().setSystem("http://unitsofmeasure.org");
222    obs.getValueQuantity().setUnit("kg");
223    obs.getValueQuantity().setValue(new BigDecimal(v));
224    b.addEntry().setFullUrl("http://hl7.org/fhir/Observation/" + obs.getId()).setResource(obs);
225  }
226
227}