cigar_operation.hpp

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// SPDX-FileCopyrightText: 2006-2025 Knut Reinert & Freie Universität Berlin
// SPDX-FileCopyrightText: 2016-2025 Knut Reinert & MPI für molekulare Genetik
// SPDX-License-Identifier: BSD-3-Clause

 
#pragma once
 
#include <seqan3/alphabet/alphabet_base.hpp>
 
// ------------------------------------------------------------------
// cigar_operation
// ------------------------------------------------------------------
 
namespace seqan3::exposition_only
{

class cigar_operation : public alphabet_base<cigar_operation, 9, char>
{
private:
    using base_t = alphabet_base<cigar_operation, 9, char>;

    friend base_t;
 
public:
    constexpr cigar_operation() noexcept = default;                                    
    constexpr cigar_operation(cigar_operation const &) noexcept = default;             
    constexpr cigar_operation(cigar_operation &&) noexcept = default;                  
    constexpr cigar_operation & operator=(cigar_operation const &) noexcept = default; 
    constexpr cigar_operation & operator=(cigar_operation &&) noexcept = default;      
    ~cigar_operation() noexcept = default;                                             

 
private:
    static constexpr char_type rank_to_char_table[alphabet_size]{'M', 'D', 'I', 'S', 'H', 'N', 'P', 'X', '='};

    static constexpr std::array<rank_type, 256> char_to_rank_table{[]() constexpr
                                                                   {
                                                                       std::array<rank_type, 256> ret{};
 
                                                                       // reverse mapping for characters
                                                                       for (size_t rnk = 0u; rnk < alphabet_size; ++rnk)
                                                                       {
                                                                           ret[rank_to_char_table[rnk]] = rnk;
                                                                       }
 
                                                                       return ret;
                                                                   }()}; // namespace seqan3::exposition_only

    static constexpr char_type rank_to_char(rank_type const rank)
    {
        return rank_to_char_table[rank];
    }

    static constexpr rank_type char_to_rank(char_type const chr)
    {
        using index_t = std::make_unsigned_t<char_type>;
        return char_to_rank_table[static_cast<index_t>(chr)];
    }
};
 
} // namespace seqan3::exposition_only