obsData.cc

#include "obsData.h"


obsSite::obsSite(  )
{
        mChr = "" ;
        mLocation = 0;
        mCoverage = 0;
        mDerived = 0;
        mClint = 0;
        mUlindi = 0;
        mDist = 0.0;
}


//redefine >> operator
std::istream& operator >>(std::istream& Stream, obsSite& Obj)
{
    Stream >> Obj.mChr >> Obj.mLocation >> Obj.mClint >> Obj.mCoverage >> Obj.mDerived >> Obj.mUlindi >> Obj.mDist;
    return Stream;
}


obsSequence::obsSequence(  )
{

}

int obsSequence::size(void)
{
    return mSequence.size();
}

obsSite obsSequence::at(int i)
{
    return mSequence[i];
}

char obsSequence::loadSequence(const char* fileName)
{
        ifstream dataStream( fileName, ifstream::in );
        if ( ! dataStream ) {
                cerr << "Error: Can't open inputfile `" << fileName << "'" << endl ;
                return 1;
        }
        while ( dataStream )
        {
                string s ;
                getline( dataStream, s ) ;
                istringstream ss( s ) ;
                obsSite tmp;
                ss >> tmp;

                if ( tmp.getChr() != "" )
                        mSequence.push_back( tmp ) ;
        }
}