input_format_concept.hpp

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// -----------------------------------------------------------------------------------------------------
// Copyright (c) 2006-2019, Knut Reinert & Freie Universität Berlin
// Copyright (c) 2016-2019, 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 <fstream>
#include <string>
#include <vector>

#include <seqan3/alphabet/nucleotide/dna5.hpp>
#include <seqan3/alphabet/quality/aliases.hpp>
#include <seqan3/alphabet/quality/phred42.hpp>
#include <seqan3/core/type_list.hpp>
#include <seqan3/io/sequence_file/input_options.hpp>

namespace seqan3::detail
{

template <typename format_tag>
class sequence_file_input_format
{};

} // namespace seqan3::detail

namespace seqan3
{

template <typename t>
SEQAN3_CONCEPT SequenceFileInputFormat = requires (detail::sequence_file_input_format<t>    & v,
                                                   std::ifstream                            & f,
                                                   sequence_file_input_options<dna5, false> & options,
                                                   dna5_vector                              & seq,
                                                   std::string                              & id,
                                                   std::vector<phred42>                     & qual,
                                                   std::vector<dna5q>                       & seq_qual)
{
    t::file_extensions;

    { v.read(f, options, seq,         id,          qual)        } -> void;
    { v.read(f, options, seq_qual,    id,          seq_qual)    } -> void;
    { v.read(f, options, std::ignore, std::ignore, std::ignore) } -> void;
};


} // namespace seqan3

namespace seqan3::detail
{

template <typename t>
constexpr bool is_type_list_of_sequence_file_input_formats_v = false;

template <typename ... ts>
constexpr bool is_type_list_of_sequence_file_input_formats_v<type_list<ts...>> =
    (SequenceFileInputFormat<ts> && ...);

template <typename t>
SEQAN3_CONCEPT TypeListOfSequenceFileInputFormats = is_type_list_of_sequence_file_input_formats_v<t>;
} // namespace seqan3::detail