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/*
Ray
Copyright (C) 2010, 2011, 2012 Sébastien Boisvert
http://DeNovoAssembler.SourceForge.Net/
This program is free software: you can redistribute it and/or modify
it under the terms of the GNU General Public License as published by
the Free Software Foundation, version 3 of the License.
This program is distributed in the hope that it will be useful,
but WITHOUT ANY WARRANTY; without even the implied warranty of
MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
GNU General Public License for more details.
You have received a copy of the GNU General Public License
along with this program (gpl-3.0.txt).
see <http://www.gnu.org/licenses/>
*/
#ifndef _ArrayOfReads
#define _ArrayOfReads
#include "Read.h"
/**
* This class holds reads. These are stored in chunks, which are utterly linked in chains.
* When a chunk is full, another one is added, and linked to the full one aforementionned.
* \author Sébastien Boisvert
*/
class ArrayOfReads{
MyAllocator*m_allocator;
int m_CHUNK_SIZE;
Read**m_chunks;
int m_numberOfChunks;
int m_maxNumberOfChunks;
LargeCount m_elements;
LargeCount m_maxSize;
public:
/**
* add a read
*/
void push_back(Read*a);
/**
* get a read
*/
Read*at(LargeIndex i);
Read*operator[](LargeIndex i);
LargeCount size();
void clear();
void constructor(MyAllocator*allocator);
void reset();
};
#endif
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