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Copy pathMinia.hpp
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61 lines (48 loc) · 1.77 KB
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/*****************************************************************************
* GATB : Genome Assembly Tool Box
* Copyright (C) 2014 INRIA
* Authors: R.Chikhi, G.Rizk, E.Drezen
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU Affero General Public License as
* published by the Free Software Foundation, either version 3 of the
* License, or (at your option) any later version.
*
* 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 Affero General Public License for more details.
*
* You should have received a copy of the GNU Affero General Public License
* along with this program. If not, see <http://www.gnu.org/licenses/>.
*****************************************************************************/
#ifndef _GATB_TOOLS_MINIA_HPP_
#define _GATB_TOOLS_MINIA_HPP_
/********************************************************************************/
#include <gatb/gatb_core.hpp>
/********************************************************************************/
/**
*/
class Minia : public gatb::core::tools::misc::impl::Tool
{
public:
/** Constructor. */
Minia ();
private:
/** \copydoc Tool::execute. */
void execute ();
/** */
void assemble (const Graph& graph);
/** */
void buildSequence (
const Graph& graph,
const Node& startingNode,
size_t length,
size_t nbContigs,
const Path& consensusRight,
const Path& consensusLeft,
Sequence& seq
);
};
/********************************************************************************/
#endif /* _GATB_TOOLS_MINIA_HPP_ */