The requirements a traits_type for seqan3::sequence_file_input must meet. More...
#include <seqan3/io/sequence_file/input.hpp>
Related Functions | |
(Note that these are not member functions.) | |
Requirements for seqan3::SequenceFileInputTraits | |
You can expect these member types of all types that satisfy seqan3::SequenceFileInputTraits. Note that the alphabet type of the seqan3::field::SEQ_QUAL cannot be specified directly, it is always seqan3::qualified<sequence_alphabet, quality_alphabet> and the container type templates for the field are those of seqan3::field::SEQ. | |
using | sequence_alphabet |
Alphabet of the characters for the seqan3::field::SEQ; must satisfy seqan3::Alphabet. | |
using | sequence_legal_alphabet |
Intermediate alphabet for seqan3::field::SEQ; must satisfy seqan3::Alphabet and be convertible to sequence_alphabet . More... | |
using | sequence_container |
Type template of the seqan3::field::SEQ, a container template over sequence_alphabet ; must satisfy seqan3::SequenceContainer. | |
using | sequence_container_container |
Type template of a column of seqan3::field::SEQ, a container template that can hold multiple sequence_container ; must satisfy seqan3::SequenceContainer. | |
using | id_alphabet |
Alphabet of the characters for the seqan3::field::ID; must satisfy seqan3::Alphabet. | |
using | id_container |
Type template of the seqan3::field::ID, a container template over id_alphabet ; must satisfy seqan3::SequenceContainer. | |
using | id_container_container |
Type template of a column of seqan3::field::ID, a container template that can hold multiple id_container ; must satisfy seqan3::SequenceContainer. | |
using | quality_alphabet |
Alphabet of the characters for the seqan3::field::QUAL; must satisfy seqan3::WritableQualityAlphabet. | |
using | quality_container |
Type template of the seqan3::field::QUAL, a container template over quality_alphabet ; must satisfy seqan3::SequenceContainer. | |
using | quality_container_container |
Type template of a column of seqan3::field::QUAL, a container template that can hold multiple quality_container ; must satisfy seqan3::SequenceContainer. | |
The requirements a traits_type for seqan3::sequence_file_input must meet.
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Intermediate alphabet for seqan3::field::SEQ; must satisfy seqan3::Alphabet and be convertible to sequence_alphabet
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This alphabet can be a superset of sequence_alphabet
to allow conversion of some characters without producing an error, e.g. if this is set to seqan3::dna15 and sequence_alphabet
is set to seqan3::dna5, 'M' will be an accepted character and automatically converted to 'N', while 'Z' will still be an illegal character and produce an error.