rna4.hpp

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// -----------------------------------------------------------------------------------------------------
// Copyright (c) 2022 deCODE Genetics
// Copyright (c) 2006-2020, Knut Reinert & Freie Universität Berlin
// Copyright (c) 2016-2020, 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/biocpp/biocpp-core/blob/main/LICENSE.md
// -----------------------------------------------------------------------------------------------------
 
#pragma once
 
#include <vector>
 
#include <bio/alphabet/nucleotide/dna4.hpp>
#include <bio/alphabet/nucleotide/nucleotide_base.hpp>
 
// ------------------------------------------------------------------
// rna4
// ------------------------------------------------------------------
 
namespace bio::alphabet
{
 
class rna4 : public nucleotide_base<rna4, 4>
{
private:
    using base_t = nucleotide_base<rna4, 4>;
 
    friend base_t;
    friend base_t::base_t;
 
public:
    constexpr rna4() noexcept                         = default; 
    constexpr rna4(rna4 const &) noexcept             = default; 
    constexpr rna4(rna4 &&) noexcept                  = default; 
    constexpr rna4 & operator=(rna4 const &) noexcept = default; 
    constexpr rna4 & operator=(rna4 &&) noexcept      = default; 
    ~rna4() noexcept                                  = default; 
 
    using base_t::base_t;
 
    constexpr rna4(dna4 const & r) noexcept { assign_rank(r.to_rank()); }
 
    constexpr rna4 complement() const noexcept { return rna4{}.assign_rank(to_rank() ^ 0b11); }
 
protected:
 
    static constexpr std::array<char_type, alphabet_size> rank_to_char{'A', 'C', 'G', 'U'};
 
    static constexpr std::array<rank_type, 256> char_to_rank = dna4::char_to_rank;
};
 
} // namespace bio::alphabet
 
// ------------------------------------------------------------------
// literals
// ------------------------------------------------------------------
 
namespace bio::alphabet
{
 
inline namespace literals
{
 
consteval rna4 operator""_rna4(char const c)
{
    if (!char_is_valid_for<rna4>(c))
        throw std::invalid_argument{"Illegal character in character literal."};
 
    return rna4{}.assign_char(c);
}
 
template <meta::detail::literal_buffer_string str>
constexpr std::vector<rna4> operator""_rna4()
{
    return detail::string_literal<str, rna4>();
}
 
} // namespace literals
 
} // namespace bio::alphabet