saxsaphandler.cpp

/*
 Copyright (C) 2006 Ronald C Beavis, all rights reserved
 X! tandem 
 This software is a component of the X! proteomics software
 development project

Use of this software governed by the Artistic license, as reproduced here:

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*/

// File version: 2006-02-17

/*
 * SAXSapHandler.cpp contains the override methods necessary for compatibility with
 * BIOML file formats.
 */

#include "stdafx.h"
#include "msequence.h"
#include "saxsaphandler.h"

SAXSapHandler::SAXSapHandler( )
	: SAXHandler()
{
		m_bProtein = false;
		m_bAa = false;
		m_mapSap.clear();
}

SAXSapHandler::~SAXSapHandler()
{
}

void SAXSapHandler::startElement(const XML_Char *el, const XML_Char **attr)
{
	if(isElement("protein", el)){
		m_bProtein = true;
		m_mapItem.clear();
		m_strId = getAttrValue("id", attr);
	}
	else if(isElement("aa", el)){
		m_bAa = true;
		string strValue;
		strValue = getAttrValue("at",attr);
		m_pairItem.first = atoi(strValue.c_str());
		strValue = getAttrValue("mut",attr);
		m_pairItem.second.first = strValue[0];
		m_pairItem.second.second = getAttrValue("id",attr);
		m_mapItem.insert(m_pairItem);
	}
}

void SAXSapHandler::endElement(const XML_Char *el)
{
	if(isElement("protein", el)){
		m_bProtein = false;
		pair <string,multimap <int,prSap> > pairValue;
		pairValue.first = m_strId;
		pairValue.second.clear();
		map<string,multimap <int,prSap> >::iterator itValue;
		itValue = m_mapSap.find(pairValue.first);
		if(itValue == m_mapSap.end())	{
			m_mapSap.insert(pairValue);
			itValue = m_mapSap.find(pairValue.first);
		}
		itValue = m_mapSap.find(pairValue.first);
		multimap<int,prSap>::iterator itMap = m_mapItem.begin();
		while(itMap != m_mapItem.end())	{
			itValue->second.insert(*itMap);
			itMap++;
		}
	}
	else if(isElement("aa", el)){
		m_bAa = false;
	}
}