/*
Copyright (c) 2006-2018 Elmar Pruesse <elmar.pruesse@ucdenver.edu>

This file is part of SINA.
SINA 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, either version 3 of the License, or (at your
option) any later version.

SINA 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 should have received a copy of the GNU General Public License
along with SINA.  If not, see <http://www.gnu.org/licenses/>.

Additional permission under GNU GPL version 3 section 7

If you modify SINA, or any covered work, by linking or combining it
with components of ARB (or a modified version of that software),
containing parts covered by the terms of the
ARB-public-library-license, the licensors of SINA grant you additional
permission to convey the resulting work. Corresponding Source for a
non-source form of such a combination shall include the source code
for the parts of ARB used as well as that of the covered work.
*/

#ifndef _MSEQ_H_
#define _MSEQ_H_

#include "graph.h"
#include "cseq.h"

#include <vector>

namespace sina {

class mseq;

class mseq_node : public aligned_base {
    mseq_node() = delete;
public:
    mseq_node(const aligned_base& b)
        : aligned_base(b), weight(1.f)
    {}

    mseq_node(int i, char c)
        : aligned_base(i,c), weight(1.f)
    {}

    float getWeight() const {
        return weight;
    }

    bool operator<(const mseq_node &rhs) const {
        return aligned_base::operator<(rhs);
    }
private:
    float weight;
    friend class mseq;
};

class mseq : public dag<mseq_node> {
public:
    mseq(std::vector<const cseq*>::iterator seqs_begin,
         std::vector<const cseq*>::iterator seqs_end,
         float weight);

    unsigned int getWidth() {
        return bases_width;
    }

private:
    unsigned int num_seqs{0};
    unsigned int bases_width{0};
};

} // namespace sina

#endif
/*
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  mode:c++
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  c-file-offsets:((innamespace . 0)(inline-open . 0)(case-label . +))
  indent-tabs-mode:nil
  fill-column:99
  End:
*/
// vim: filetype=cpp:expandtab:shiftwidth=4:tabstop=8:softtabstop=4:encoding=utf-8:textwidth=99 :