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/*
* Copyright (c) Medical Research Council 2000. All rights reserved.
*
* Permission to use, copy, modify and distribute this software and its
* documentation for any purpose is hereby granted without fee, provided that
* this copyright and notice appears in all copies.
*
* This file was written as part of the Staden Package at the MRC Laboratory
* of Molecular Biology, Hills Road, Cambridge, CB2 2QH, United Kingdom.
*
* MRC disclaims all warranties with regard to this software.
*
*/
#include <cassert>
#include <cstring> // For memset(), strcpy(), strlen()...
#include <tagarray.hpp>
//------
// Init
//------
void TagArray::Init()
{
m_pArray = 0;
m_nLength = 0;
m_bAutoDestroy = true;
}
//-------
// Empty
//-------
void TagArray::Empty()
{
if( m_pArray && m_bAutoDestroy )
{
// Delete all comments, then array
for( int n=0; n<m_nLength; n++ )
delete [] m_pArray[n].Comment;
delete [] m_pArray;
}
Init();
}
//--------
// Create
//--------
void TagArray::Create( int nLength )
{
assert(nLength>0);
if( m_pArray )
Empty();
m_pArray = new mutlib_tag_t[ nLength ];
m_nLength = nLength;
std::memset( m_pArray, 0, nLength*sizeof(mutlib_tag_t) );
}
//------
// Wrap
//------
void TagArray::Wrap( mutlib_tag_t* a, int nLength )
{
assert(nLength>0);
if( m_pArray )
Empty();
m_pArray = a;
m_nLength = nLength;
}
//-----------
// Read Tags
//-----------
void TagArray::ReadTags( List<MutTag>& rList, int nPositionIndex, bool bComplement )
{
const char* s;
MutTag* pTag;
// Copies the content of each tag into the tag array
pTag = rList.First();
for( int n=0; pTag && (n<m_nLength); n++ )
{
std::strcpy( m_pArray[n].Type, pTag->Name() );
assert(std::strlen(m_pArray[n].Type)<=4);
m_pArray[n].Strand = pTag->Strand();
m_pArray[n].Position[0] = pTag->Position( nPositionIndex );
m_pArray[n].Position[1] = 0;
s = pTag->Comment( bComplement );
m_pArray[n].Comment = new char[ std::strlen(s)+1 ];
std::strcpy( m_pArray[n].Comment, s );
pTag = rList.Next();
}
}
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