7 #ifndef VALUE_MAP_ACCESS_PAIRED_HPP_ 8 #define VALUE_MAP_ACCESS_PAIRED_HPP_ 59 std::string
sequence_rev(
const bool trim,
const bool reverse)
const {
83 qual_type
quality_rev(
const bool trim,
const bool reverse)
const {
152 return value<std::string>(
ids_.emid_fwd());
156 (*this)[
ids_.emid_fwd()] = seq;
160 return value<std::string>(
ids_.emid_rev());
164 (*this)[
ids_.emid_rev()] = seq;
168 return value<std::string>(
ids_.emid_path_fwd());
172 return value<std::string>(
ids_.emid_path_rev());
176 (*this)[
ids_.emid_path_fwd()] = s;
180 (*this)[
ids_.emid_path_rev()] = s;
Vm_access_paired_emid()
Definition: value_map_access_paired.hpp:147
Val_id sequence_rev() const
Definition: value_names.hpp:95
void sequence_rev(seq_type const &seq)
Definition: value_map_access_paired.hpp:63
Val_id description_fwd() const
Definition: value_names.hpp:92
Provides access to standard values for paired read pipeline.
Definition: value_names.hpp:70
void sequence_path_fwd(std::string const &s)
Definition: value_map_access_paired.hpp:111
void quality_path_fwd(std::string const &s)
Definition: value_map_access_paired.hpp:127
Val_id quality_fwd() const
Definition: value_names.hpp:96
Provides access to standard eMID values.
Definition: value_names.hpp:111
Vm_access_paired()
Definition: value_map_access_paired.hpp:23
void sequence_fwd(seq_type const &seq)
Definition: value_map_access_paired.hpp:51
Definition: sequence_record.hpp:35
Value_ids_paired ids_
Definition: value_map_access_paired.hpp:140
Val_id interval_fwd() const
Definition: value_names.hpp:98
sequence_interval interval_fwd() const
Definition: value_map_access_paired.hpp:91
std::string const & emid_path_fwd() const
Definition: value_map_access_paired.hpp:167
void quality_path_rev(std::string const &s)
Definition: value_map_access_paired.hpp:135
seq_type const & emid_rev() const
Definition: value_map_access_paired.hpp:159
Val_id sequence_path_fwd() const
Definition: value_names.hpp:100
Seq_record::sequence seq_type
Definition: value_map_access_paired.hpp:18
void emid_path_rev(std::string const &s)
Definition: value_map_access_paired.hpp:179
std::string sequence_rev(const bool trim, const bool reverse) const
Definition: value_map_access_paired.hpp:59
void interval_fwd(sequence_interval const &si)
Definition: value_map_access_paired.hpp:95
std::string const & emid_path_rev() const
Definition: value_map_access_paired.hpp:171
seq_type const & emid_fwd() const
Definition: value_map_access_paired.hpp:151
Access to value map for paired read pipeline and processing steps.
Definition: value_map_access_paired.hpp:16
qual_type quality_rev(const bool trim, const bool reverse) const
Definition: value_map_access_paired.hpp:83
void quality_rev(qual_type const &qual)
Definition: value_map_access_paired.hpp:87
Val_id quality_rev() const
Definition: value_names.hpp:97
Access to value map for paired eMID read pipeline and processing steps.
Definition: value_map_access_paired.hpp:145
Val_id quality_path_fwd() const
Definition: value_names.hpp:102
sequence_interval interval_rev() const
Definition: value_map_access_paired.hpp:99
Val_id interval_rev() const
Definition: value_names.hpp:99
Main namespace of vdj_pipe library.
Definition: keywords_variable.hpp:11
Val_id sequence_fwd() const
Definition: value_names.hpp:94
seq_type const & sequence_rev() const
Definition: value_map_access_paired.hpp:55
std::string sequence_fwd(const bool trim) const
Definition: value_map_access_paired.hpp:47
std::string const & description_rev() const
Definition: value_map_access_paired.hpp:35
Qual_record::quality qual
Definition: match_element_run.cpp:26
Value_ids_emid ids_
Definition: value_map_access_paired.hpp:184
Val_id description_rev() const
Definition: value_names.hpp:93
void emid_fwd(seq_type const &seq)
Definition: value_map_access_paired.hpp:155
seq_type const & sequence_fwd() const
Definition: value_map_access_paired.hpp:43
Qual_record::quality quality(const Val_id qual_id, const Val_id trim_id, const bool trimmed, const bool reverse_compl) const
Definition: value_map.hpp:207
std::string const & sequence_path_fwd() const
Definition: value_map_access_paired.hpp:107
void description_fwd(std::string const &descr)
Definition: value_map_access_paired.hpp:31
std::string const & sequence_path_rev() const
Definition: value_map_access_paired.hpp:115
void emid_path_fwd(std::string const &s)
Definition: value_map_access_paired.hpp:175
Val_id quality_path_rev() const
Definition: value_names.hpp:103
Qual_record::quality qual_type
Definition: value_map_access_paired.hpp:19
Definition: value_map_access_paired.hpp:21
std::string const & quality_path_rev() const
Definition: value_map_access_paired.hpp:131
void interval_rev(sequence_interval const &si)
Definition: value_map_access_paired.hpp:103
std::string const & quality_path_fwd() const
Definition: value_map_access_paired.hpp:123
void quality_fwd(qual_type const &qual)
Definition: value_map_access_paired.hpp:75
Val_id sequence_path_rev() const
Definition: value_names.hpp:101
qual_type const & quality_fwd() const
Definition: value_map_access_paired.hpp:67
std::string sequence
Definition: sequence_record.hpp:29
boost::numeric::interval< int, boost::numeric::interval_lib::policies< boost::numeric::interval_lib::rounded_math< int >, detail::Interval_checking_policy< int > > > sequence_interval
Definition: sequence_interval.hpp:40
Definition: exception.hpp:23
void sequence_path_rev(std::string const &s)
Definition: value_map_access_paired.hpp:119
std::string const & description_fwd() const
Definition: value_map_access_paired.hpp:27
void emid_rev(seq_type const &seq)
Definition: value_map_access_paired.hpp:163
Store values mapped against name strings and value IDs.
Definition: value_map.hpp:23
void description_rev(std::string const &descr)
Definition: value_map_access_paired.hpp:39
qual_type const & quality_rev() const
Definition: value_map_access_paired.hpp:79
std::string sequence(const Val_id seq_id, const Val_id trim_id, const bool trimmed, const bool reverse_compl) const
Definition: value_map.hpp:191
qual_type quality_fwd(const bool trim) const
Definition: value_map_access_paired.hpp:71