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stage
include
ost
seq
alg
global_align.hh
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//------------------------------------------------------------------------------
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// This file is part of the OpenStructure project <www.openstructure.org>
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//
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// Copyright (C) 2008-2011 by the OpenStructure authors
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//
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// This library is free software; you can redistribute it and/or modify it under
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// the terms of the GNU Lesser General Public License as published by the Free
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// Software Foundation; either version 3.0 of the License, or (at your option)
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// any later version.
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// This library is distributed in the hope that it will be useful, but WITHOUT
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// ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS
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// FOR A PARTICULAR PURPOSE. See the GNU Lesser General Public License for more
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// details.
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//
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// You should have received a copy of the GNU Lesser General Public License
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// along with this library; if not, write to the Free Software Foundation, Inc.,
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// 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301 USA
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//------------------------------------------------------------------------------
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#ifndef OST_SEQ_ALG_GLOBAL_ALIGN_HH
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#define OST_SEQ_ALG_GLOBAL_ALIGN_HH
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#include <
ost/seq/alignment_handle.hh
>
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#include <
ost/seq/alg/subst_weight_matrix.hh
>
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#include "
module_config.hh
"
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namespace
ost {
namespace
seq {
namespace
alg {
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AlignmentList
DLLEXPORT_OST_SEQ_ALG
GlobalAlign
(
const
ConstSequenceHandle& s1,
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const
ConstSequenceHandle& s2,
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SubstWeightMatrixPtr
& subst,
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int
gap_open=-5,
int
gap_ext=-2);
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}}}
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#endif
DLLEXPORT_OST_SEQ_ALG
#define DLLEXPORT_OST_SEQ_ALG
Definition:
module_config.hh:27
subst_weight_matrix.hh
module_config.hh
ost::seq::AlignmentList
std::vector< AlignmentHandle > AlignmentList
Definition:
alignment_handle.hh:193
alignment_handle.hh
ost::seq::alg::GlobalAlign
AlignmentList DLLIMPORT GlobalAlign(const ConstSequenceHandle &s1, const ConstSequenceHandle &s2, SubstWeightMatrixPtr &subst, int gap_open=-5, int gap_ext=-2)
ost::seq::alg::SubstWeightMatrixPtr
boost::shared_ptr< SubstWeightMatrix > SubstWeightMatrixPtr
Definition:
subst_weight_matrix.hh:33
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