at_end | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | private |
begin() | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | inline |
cigar_type typedef | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | |
const_iterator typedef | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | |
const_reference typedef | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | |
difference_type typedef | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | |
dummy_ref_type typedef | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | private |
end() noexcept | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | inline |
field_ids typedef | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | |
field_types typedef | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | |
first_record_was_read | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | private |
flag_type typedef | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | |
format | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | private |
format_type typedef | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | private |
front() noexcept | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | inline |
header() | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | inline |
header_ptr | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | private |
header_type typedef | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | |
id_type typedef | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | |
init_by_filename(std::filesystem::path filename) | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | inlineprivate |
init_by_format() | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | inlineprivate |
iterator typedef | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | |
iterator | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | private |
mapq_type typedef | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | |
mate_type typedef | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | |
operator=(sam_file_input const &)=delete | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | |
operator=(sam_file_input &&)=default | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | |
options | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | |
position_buffer | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | private |
primary_stream | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | private |
quality_type typedef | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | |
read_next_record() | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | inlineprivate |
record_buffer | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | private |
record_type typedef | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | |
ref_id_type typedef | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | |
ref_offset_type typedef | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | |
ref_sequence_sliced_type typedef | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | private |
ref_sequence_type typedef | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | |
ref_sequence_unsliced_type typedef | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | private |
reference typedef | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | |
reference_sequences_ptr | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | private |
sam_file_input()=delete | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | |
sam_file_input(sam_file_input const &)=delete | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | |
sam_file_input(sam_file_input &&)=default | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | |
sam_file_input(std::filesystem::path filename, selected_field_ids const &fields_tag=selected_field_ids{}) | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | inline |
sam_file_input(stream_t &stream, file_format const &format_tag, selected_field_ids const &fields_tag=selected_field_ids{}) | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | inline |
sam_file_input(stream_t &&stream, file_format const &format_tag, selected_field_ids const &fields_tag=selected_field_ids{}) | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | inline |
sam_file_input(std::filesystem::path filename, typename traits_type::ref_ids &ref_ids, typename traits_type::ref_sequences &ref_sequences, selected_field_ids const &fields_tag=selected_field_ids{}) | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | inline |
sam_file_input(stream_t &stream, typename traits_type::ref_ids &ref_ids, typename traits_type::ref_sequences &ref_sequences, file_format const &format_tag, selected_field_ids const &fields_tag=selected_field_ids{}) | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | inline |
sam_file_input(stream_t &&stream, typename traits_type::ref_ids &ref_ids, typename traits_type::ref_sequences &ref_sequences, file_format const &format_tag, selected_field_ids const &fields_tag=selected_field_ids{}) | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | inline |
sam_file_input(stream_type &&stream, file_format const &, selected_field_ids const &) -> sam_file_input< typename sam_file_input<>::traits_type, selected_field_ids, type_list< file_format > > | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | related |
sam_file_input(stream_type &stream, file_format const &, selected_field_ids const &) -> sam_file_input< typename sam_file_input<>::traits_type, selected_field_ids, type_list< file_format > > | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | related |
sam_file_input(stream_type &&stream, file_format const &) -> sam_file_input< typename sam_file_input<>::traits_type, typename sam_file_input<>::selected_field_ids, type_list< file_format > > | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | related |
sam_file_input(stream_type &stream, file_format const &) -> sam_file_input< typename sam_file_input<>::traits_type, typename sam_file_input<>::selected_field_ids, type_list< file_format > > | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | related |
sam_file_input(std::filesystem::path path, ref_ids_t &, ref_sequences_t &, selected_field_ids const &) -> sam_file_input< sam_file_input_default_traits< std::remove_reference_t< ref_sequences_t >, std::remove_reference_t< ref_ids_t > >, selected_field_ids, typename sam_file_input<>::valid_formats > | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | related |
sam_file_input(std::filesystem::path path, ref_ids_t &, ref_sequences_t &) -> sam_file_input< sam_file_input_default_traits< std::remove_reference_t< ref_sequences_t >, std::remove_reference_t< ref_ids_t > >, typename sam_file_input<>::selected_field_ids, typename sam_file_input<>::valid_formats > | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | related |
sam_file_input(stream_type &&stream, ref_ids_t &, ref_sequences_t &, file_format const &, selected_field_ids const &) -> sam_file_input< sam_file_input_default_traits< std::remove_reference_t< ref_sequences_t >, std::remove_reference_t< ref_ids_t > >, selected_field_ids, type_list< file_format > > | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | related |
sam_file_input(stream_type &stream, ref_ids_t &, ref_sequences_t &, file_format const &, selected_field_ids const &) -> sam_file_input< sam_file_input_default_traits< std::remove_reference_t< ref_sequences_t >, std::remove_reference_t< ref_ids_t > >, selected_field_ids, type_list< file_format > > | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | related |
sam_file_input(stream_type &&stream, ref_ids_t &, ref_sequences_t &, file_format const &) -> sam_file_input< sam_file_input_default_traits< std::remove_reference_t< ref_sequences_t >, std::remove_reference_t< ref_ids_t > >, typename sam_file_input<>::selected_field_ids, type_list< file_format > > | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | related |
sam_file_input(stream_type &stream, ref_ids_t &, ref_sequences_t &, file_format const &) -> sam_file_input< sam_file_input_default_traits< std::remove_reference_t< ref_sequences_t >, std::remove_reference_t< ref_ids_t > >, typename sam_file_input<>::selected_field_ids, type_list< file_format > > | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | related |
secondary_stream | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | private |
selected_field_ids typedef | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | |
sentinel typedef | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | |
sequence_type typedef | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | |
set_references(typename traits_type::ref_ids &ref_ids, ref_sequences_t &&ref_sequences) | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | inlineprivate |
size_type typedef | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | |
stream_buffer | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | private |
stream_char_type typedef | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | |
stream_deleter_default(std::basic_istream< stream_char_type > *ptr) | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | inlineprivatestatic |
stream_deleter_noop(std::basic_istream< stream_char_type > *) | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | inlineprivatestatic |
stream_ptr_t typedef | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | private |
traits_type typedef | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | |
valid_formats typedef | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | |
value_type typedef | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | |
~sam_file_input()=default | seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ > | |