seqan3/main_user/sequence__file_2input__options_8hpp_source.html

// SPDX-FileCopyrightText: 2006-2024 Knut Reinert & Freie Universität Berlin

// SPDX-FileCopyrightText: 2016-2024 Knut Reinert & MPI für molekulare Genetik

// SPDX-License-Identifier: BSD-3-Clause


#pragma once


#include <seqan3/core/platform.hpp>


namespace seqan3

{

template <typename sequence_legal_alphabet>


struct sequence_file_input_options

{

    bool truncate_ids = false;

    bool embl_genbank_complete_header = false;

    bool fasta_ignore_blanks_before_id = true;

};


} // namespace seqan3

seqan3
The main SeqAn3 namespace.
Definition aligned_sequence_concept.hpp:26

platform.hpp
Provides platform and dependency checks.

seqan3::sequence_file_input_options
The options type defines various option members that influence the behaviour of all or some formats.
Definition sequence_file/input_options.hpp:24

seqan3::sequence_file_input_options::fasta_ignore_blanks_before_id
bool fasta_ignore_blanks_before_id
Remove spaces after ">" (or ";") before the actual ID.
Definition sequence_file/input_options.hpp:30

seqan3::sequence_file_input_options::embl_genbank_complete_header
bool embl_genbank_complete_header
Read the complete_header into the seqan3::field::id for embl or genbank format.
Definition sequence_file/input_options.hpp:28

seqan3::sequence_file_input_options::truncate_ids
bool truncate_ids
Read the ID string only up until the first whitespace character.
Definition sequence_file/input_options.hpp:26