scoring_scheme_policy.hpp

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// -----------------------------------------------------------------------------------------------------
// Copyright (c) 2006-2021, Knut Reinert & Freie Universität Berlin
// Copyright (c) 2016-2021, Knut Reinert & MPI für molekulare Genetik
// This file may be used, modified and/or redistributed under the terms of the 3-clause BSD-License
// shipped with this file and also available at: https://github.com/seqan/seqan3/blob/master/LICENSE.md
// -----------------------------------------------------------------------------------------------------
 
#pragma once
 
#include <seqan3/alphabet/concept.hpp>
#include <seqan3/utility/simd/concept.hpp>
#include <seqan3/utility/type_traits/basic.hpp>
 
namespace seqan3::detail
{
 
template <typename alignment_algorithm_t, typename scoring_scheme_t>
class scoring_scheme_policy
{
private:
    friend alignment_algorithm_t;
 
    constexpr scoring_scheme_policy() = default;
    constexpr scoring_scheme_policy(scoring_scheme_policy const &) = default;
    constexpr scoring_scheme_policy(scoring_scheme_policy &&) = default;
    constexpr scoring_scheme_policy & operator=(scoring_scheme_policy const &) = default;
    constexpr scoring_scheme_policy & operator=(scoring_scheme_policy &&) = default;
    ~scoring_scheme_policy() = default;
 
    template <typename configuration_t>
    scoring_scheme_policy(configuration_t const & /*config*/)
    {}
 
    scoring_scheme_t scoring_scheme{};
 
    template <typename alphabet_t>
        requires simd_concept<std::remove_cvref_t<alphabet_t>>
    auto scoring_scheme_profile_column(alphabet_t && alphabet) const noexcept
    {
        return scoring_scheme.make_score_profile(std::forward<alphabet_t>(alphabet));
    }
 
    template <semialphabet alphabet_t>
    alphabet_t scoring_scheme_profile_column(alphabet_t && alphabet) const
        noexcept
    {
        return std::forward<alphabet_t>(alphabet);
    }
};
 
} // namespace seqan3::detail