ARVReportData.java

/**
* The contents of this file are subject to the Mozilla Public License
* Version 1.1 (the "License"); you may not use this file except in
* compliance with the License. You may obtain a copy of the License at
* http://www.mozilla.org/MPL/
*
* Software distributed under the License is distributed on an "AS IS"
* basis, WITHOUT WARRANTY OF ANY KIND, either express or implied. See the
* License for the specific language governing rights and limitations under
* the License.
*
* The Original Code is OpenELIS code.
*
* Copyright (C) CIRG, University of Washington, Seattle WA.  All Rights Reserved.
*
*/
package us.mn.state.health.lims.reports.action.implementation.reportBeans;

import java.util.HashMap;
import java.util.List;
import java.util.Map;

import org.apache.commons.validator.GenericValidator;

import us.mn.state.health.lims.common.services.NoteService;
import us.mn.state.health.lims.common.services.QAService;
import us.mn.state.health.lims.common.services.QAService.QAObservationType;
import us.mn.state.health.lims.note.valueholder.Note;
import us.mn.state.health.lims.qaevent.valueholder.retroCI.QaEventItem;
import us.mn.state.health.lims.sample.valueholder.Sample;
import us.mn.state.health.lims.sampleitem.valueholder.SampleItem;
import us.mn.state.health.lims.sampleqaevent.dao.SampleQaEventDAO;
import us.mn.state.health.lims.sampleqaevent.daoimpl.SampleQaEventDAOImpl;
import us.mn.state.health.lims.sampleqaevent.valueholder.SampleQaEvent;

public class ARVReportData {
	
	private String glyc;
	private String creatininemie;
	private String sgpt;
	private String sgot;
	private String gb;
	private String gr;
	private String hb;
	private String hct;
	private String vgm;
	private String plq;
	private String tcmh;
	private String ccmh;
	private String cd4per;
	private String nper;
	private String lper;
	private String mper;
	private String eoper;
	private String bper;
	private String cd4;
	private String vih;
	private String ampli2;
	private String ampli2lo;
	private String subjectNumber;
	private String birth_date;
	private String age;
	private String gender;
	private String collectiondate;
	private String receptiondate;
	private String orgname;
	private String doctor;
	private String labNo;
	private String pcr;
	private String status;
	private Boolean showVirologie = Boolean.FALSE;
	private Boolean showSerologie = Boolean.FALSE;
	private Boolean showPCR = Boolean.FALSE;
	private Boolean duplicateReport = Boolean.FALSE;
	
	private List<SampleQaEvent> sampleQAEventList;
	private String allQaEvents=null;
	private String receptionQaEvent=null;
	private String biochemistryQaEvent=null;
	private String virologyQaEvent=null;
	private String virologyEidQaEvent=null;
	private String virologyVlQaEvent=null;
	private String serologyQaEvent=null;
	private String immunologyQaEvent=null;
	private String hematologyQaEvent=null;
	
	private Map<String, String> previousResultMap = new HashMap<String, String>();

	public String getGlyc() {
		return glyc;
	}
	public void setGlyc(String glyc) {
		this.glyc = glyc;
	}
	public String getCreatininemie() {
		return creatininemie;
	}
	public void setCreatininemie(String creatininemie) {
		this.creatininemie = creatininemie;
	}
	public String getSgpt() {
		return sgpt;
	}
	public void setSgpt(String sgpt) {
		this.sgpt = sgpt;
	}
	public String getSgot() {
		return sgot;
	}
	public void setSgot(String sgot) {
		this.sgot = sgot;
	}
	public String getGb() {
		return gb;
	}
	public void setGb(String gb) {
		this.gb = gb;
	}
	public String getGr() {
		return gr;
	}
	public void setGr(String gr) {
		this.gr = gr;
	}
	public String getHb() {
		return hb;
	}
	public void setHb(String hb) {
		this.hb = hb;
	}
	public String getHct() {
		return hct;
	}
	public void setHct(String hct) {
		this.hct = hct;
	}
	public String getVgm() {
		return vgm;
	}
	public void setVgm(String vgm) {
		this.vgm = vgm;
	}
	public String getPlq() {
		return plq;
	}
	public void setPlq(String plq) {
		this.plq = plq;
	}
	public String getCd4per() {
		return cd4per;
	}
	public void setCd4per(String cd4per) {
		this.cd4per = cd4per;
	}
	public String getNper() {
		return nper;
	}
	public void setNper(String nper) {
		this.nper = nper;
	}
	public String getLper() {
		return lper;
	}
	public void setLper(String lper) {
		this.lper = lper;
	}
	public String getMper() {
		return mper;
	}
	public void setMper(String mper) {
		this.mper = mper;
	}
	public String getEoper() {
		return eoper;
	}
	public void setEoper(String eoper) {
		this.eoper = eoper;
	}
	public String getBper() {
		return bper;
	}
	public void setBper(String bper) {
		this.bper = bper;
	}
	public String getCd4() {
		return cd4;
	}
	public void setCd4(String cd4) {
		this.cd4 = cd4;
	}
	public String getVih() {
		return vih;
	}
	public void setVih(String vih) {
		this.vih = vih;
	}
	public String getAmpli2() {
		return ampli2;
	}
	public void setAmpli2(String ampli2) {
		this.ampli2 = ampli2;
	}
	public String getAmpli2lo() {
		return ampli2lo;
	}
	public void setAmpli2lo(String ampli2lo) {
		this.ampli2lo = ampli2lo;
	}

	public String getSubjectNumber() {
		return subjectNumber;
	}
	public void setSubjectNumber(String subjectNumber) {
		this.subjectNumber = subjectNumber;
	}
	public String getBirth_date() {
		return birth_date;
	}
	public void setBirth_date(String birthDate) {
		birth_date = birthDate;
	}
	public String getAge() {
		return age;
	}
	public void setAge(String age) {
		this.age = age;
	}
	public String getGender() {
		return gender;
	}
	public void setGender(String gender) {
		this.gender = gender;
	}
	public String getCollectiondate() {
		return collectiondate;
	}
	public void setCollectiondate(String collectiondate) {
		this.collectiondate = collectiondate;
	}
	public String getOrgname() {
		return orgname;
	}
	public void setOrgname(String orgname) {
		this.orgname = orgname;
	}
	public String getDoctor() {
		return doctor;
	}
	public void setDoctor(String doctor) {
		this.doctor = doctor;
	}
	public String getLabNo() {
		return labNo;
	}
	public void setLabNo(String labNo) {
		this.labNo = labNo;
	}
	public String getTcmh() {
		return tcmh;
	}
	public void setTcmh(String tcmh) {
		this.tcmh = tcmh;
	}
	public String getCcmh() {
		return ccmh;
	}
	public void setCcmh(String ccmh) {
		this.ccmh = ccmh;
	}
	public String getPcr() {
		return pcr;
	}
	public void setPcr(String pcr) {
		this.pcr = pcr;
	}
	public void setStatus(String status) {
		this.status = status;
	}
	public String getStatus() {
		return status;
	}
	public String getReceptiondate() {
		return receptiondate;
	}
	public void setReceptiondate(String receptiondate) {
		this.receptiondate = receptiondate;
	}
	public Boolean getShowVirologie(){
		return showVirologie;
	}
	public void setShowVirologie(Boolean showVirologie){
		this.showVirologie = showVirologie;
	}
	public Boolean getShowSerologie(){
		return showSerologie;
	}
	public void setShowSerologie(Boolean showSerologie){
		this.showSerologie = showSerologie;
	}
	public Boolean getShowPCR(){
		return showPCR;
	}
	public void setShowPCR(Boolean showPCR){
		this.showPCR = showPCR;
	}
	public Boolean getDuplicateReport() {
		return duplicateReport;
	}
	public void setDuplicateReport(Boolean duplicateReport) {
		this.duplicateReport = duplicateReport;
	}
	public String getReceptionQaEvent() {
		return receptionQaEvent;
	}
	public void setReceptionQaEvent(String receptionQaEvent) {
		this.receptionQaEvent = receptionQaEvent;
	}
	public String getBiochemistryQaEvent() {
		return biochemistryQaEvent;
	}
	public void setBiochemistryQaEvent(String biochemistryQaEvent) {
		this.biochemistryQaEvent = biochemistryQaEvent;
	}
	public String getVirologyQaEvent() {
		return virologyQaEvent;
	}
	public void setVirologyQaEvent(String virologyQaEvent) {
		this.virologyQaEvent = virologyQaEvent;
	}
	public String getVirologyEidQaEvent() {
		return virologyEidQaEvent;
	}
	public void setVirologyEidQaEvent(String virologyEidQaEvent) {
		this.virologyEidQaEvent = virologyEidQaEvent;
	}
	public String getVirologyVlQaEvent() {
		return virologyVlQaEvent;
	}
	public void setVirologyVlQaEvent(String virologyVlQaEvent) {
		this.virologyVlQaEvent = virologyVlQaEvent;
	}
	public String getSerologyQaEvent() {
		return serologyQaEvent;
	}
	public void setSerologyQaEvent(String serologyQaEvent) {
		this.serologyQaEvent = serologyQaEvent;
	}
	public String getImmunologyQaEvent() {
		return immunologyQaEvent;
	}
	public void setImmunologyQaEvent(String immunologyQaEvent) {
		this.immunologyQaEvent = immunologyQaEvent;
	}
	public String getHematologyQaEvent() {
		return hematologyQaEvent;
	}
	public void setHematologyQaEvent(String hematologyQaEvent) {
		this.hematologyQaEvent = hematologyQaEvent;
	}
	/**
	 * @param sample
	 * @return
	 */
	public String getAllQaEvents(){
		return allQaEvents;
	}
	public void setAllQaEvents(String  allQaEvents){
		this.allQaEvents=allQaEvents;
	}
	public Map<String, String>  getPreviousResultMap(){
		return previousResultMap;
	}
	public void setPreviousResultMap(Map<String, String> previousResultMap){
		this.previousResultMap=previousResultMap;
	}
	public void getSampleQaEventItems(Sample sample){
		if(sample != null){
			getSampleQaEvents(sample);
			for(SampleQaEvent event : sampleQAEventList){
				QAService qa = new QAService(event);
				QaEventItem item = new QaEventItem();
				item.setId(qa.getEventId());
				item.setQaEvent(qa.getQAEvent().getId());
				SampleItem sampleItem = qa.getSampleItem();
                // -1 is the index for "all samples"
				String sampleType=(sampleItem == null) ? "-1" : sampleItem.getTypeOfSample().getNameKey();
				allQaEvents=allQaEvents==null?sampleType+":"+qa.getQAEvent().getNameKey():allQaEvents+";"+sampleType+":"+qa.getQAEvent().getNameKey();
				if(!GenericValidator.isBlankOrNull(qa.getObservationValue( QAObservationType.SECTION )) && qa.getObservationValue( QAObservationType.SECTION ).equals("testSection.Reception"))
					receptionQaEvent=receptionQaEvent==null ? qa.getQAEvent().getLocalizedName() : receptionQaEvent+" , "+qa.getQAEvent().getLocalizedName();
				
				if(!GenericValidator.isBlankOrNull(qa.getObservationValue( QAObservationType.SECTION )) && qa.getObservationValue( QAObservationType.SECTION ).equals("testSection.Biochemistry"))
					biochemistryQaEvent=biochemistryQaEvent==null ? qa.getQAEvent().getLocalizedName() : biochemistryQaEvent+" , "+qa.getQAEvent().getLocalizedName();
					
				else if(!GenericValidator.isBlankOrNull(qa.getObservationValue( QAObservationType.SECTION )) && qa.getObservationValue( QAObservationType.SECTION ).equals("testSection.Virology"))
					virologyQaEvent=virologyQaEvent==null ? qa.getQAEvent().getLocalizedName() : virologyQaEvent+" , "+qa.getQAEvent().getLocalizedName();

				else if(!GenericValidator.isBlankOrNull(qa.getObservationValue( QAObservationType.SECTION )) && qa.getObservationValue( QAObservationType.SECTION ).equals("testSection.VL"))
					virologyVlQaEvent=virologyVlQaEvent==null ? qa.getQAEvent().getLocalizedName() : virologyVlQaEvent+" , "+qa.getQAEvent().getLocalizedName();

				else if(!GenericValidator.isBlankOrNull(qa.getObservationValue( QAObservationType.SECTION )) && qa.getObservationValue( QAObservationType.SECTION ).equals("testSection.EID"))
					virologyEidQaEvent=virologyEidQaEvent==null ? qa.getQAEvent().getLocalizedName() : virologyEidQaEvent+" , "+qa.getQAEvent().getLocalizedName();

				else if(!GenericValidator.isBlankOrNull(qa.getObservationValue( QAObservationType.SECTION )) && qa.getObservationValue( QAObservationType.SECTION ).equals("testSection.Serology"))
					serologyQaEvent=serologyQaEvent==null ? qa.getQAEvent().getLocalizedName() : serologyQaEvent+" , "+qa.getQAEvent().getLocalizedName();
	
				else if(!GenericValidator.isBlankOrNull(qa.getObservationValue( QAObservationType.SECTION )) && qa.getObservationValue( QAObservationType.SECTION ).equals("testSection.Immunology"))
				     immunologyQaEvent=immunologyQaEvent==null ? qa.getQAEvent().getLocalizedName() : immunologyQaEvent+" , "+qa.getQAEvent().getLocalizedName();
				
				else if(!GenericValidator.isBlankOrNull(qa.getObservationValue( QAObservationType.SECTION )) && qa.getObservationValue( QAObservationType.SECTION ).equals("testSection.Hematology"))
					 hematologyQaEvent=hematologyQaEvent==null ? qa.getQAEvent().getLocalizedName() : hematologyQaEvent+" , "+qa.getQAEvent().getLocalizedName();

			}
		}

	}
	public void getSampleQaEvents(Sample sample){
		SampleQaEventDAO sampleQaEventDAO = new SampleQaEventDAOImpl();
		sampleQAEventList = sampleQaEventDAO.getSampleQaEventsBySample(sample);
	}
	public static String getNoteForSampleQaEvent(SampleQaEvent sampleQaEvent){
		if(sampleQaEvent == null || GenericValidator.isBlankOrNull(sampleQaEvent.getId())){
			return null;
		}else{
	        Note note = new NoteService( sampleQaEvent ).getMostRecentNoteFilteredBySubject( null );
			return note != null ? note.getText() : null;
		}
	}
}