seqan/3.0.3/structseqan3_1_1fields.html

#include <sstream>


#include <seqan3/io/record.hpp>

#include <seqan3/io/sequence_file/input.hpp>

#include <seqan3/io/sequence_file/output.hpp>


auto input = R"(> TEST1

ACGT

> Test2

AGGCTGA

> Test3

GGAGTATAATATATATATATATAT)";


int main()

{

    using seqan3::get;


    // specify custom field combination/order to file:

    seqan3::sequence_file_input fin{std::istringstream{input},

                                    seqan3::format_fasta{},

                                    seqan3::fields<seqan3::field::id, seqan3::field::seq>{}};


    auto record = fin.front(); // get current record, in this case the first


    auto & id = record.id();

    auto & seq = record.sequence();

}

std::istringstream

seqan3::format_fasta
The FastA format.
Definition: format_fasta.hpp:81

seqan3::sequence_file_input
A class for reading sequence files, e.g. FASTA, FASTQ ...
Definition: input.hpp:309

seqan3::field::seq
@ seq
The "sequence", usually a range of nucleotides or amino acids.

output.hpp
Provides seqan3::sequence_file_output and corresponding traits classes.

seqan3::get
constexpr auto const  & get(configuration< configs_t... > const &config) noexcept
This is an overloaded member function, provided for convenience. It differs from the above function o...
Definition: configuration.hpp:429

record.hpp
Provides the seqan3::record template and the seqan3::field enum.

input.hpp
Provides seqan3::sequence_file_input and corresponding traits classes.

sstream

seqan3::fields
A class template that holds a choice of seqan3::field.
Definition: record.hpp:172
Related Functions
(Note that these are not member functions.)
template<typename t >
SEQAN3_CONCEPT	fields_specialisation = is_value_specialisation_of_v<t, fields>
	Auxiliary concept that checks whether a type is a specialisation of seqan3::fields.