core::sequence::AnnotatedSequence Class Reference

#include <AnnotatedSequence.hh>

Inheritance diagram for core::sequence::AnnotatedSequence:

Public Member Functions
	AnnotatedSequence ()
	AnnotatedSequence (std::string const &)
	AnnotatedSequence (AnnotatedSequence const &other)
void	operator= (std::string const &)
AnnotatedSequence &	operator= (AnnotatedSequence const &other)
bool	is_patched (core::Size seqpos) const
std::string	patch_str (core::Size seqpos) const
char	one_letter (core::Size seqpos) const
core::chemical::AA	aa (core::Size seqpos) const
std::string	one_letter_sequence () const
core::Size	length () const

Private Types
typedef utility::vector1 < core::Size >	PositionMap

Private Member Functions
void	calculate_map () const

Private Attributes
PositionMap	pos_map_
bool	map_is_clean_
std::string	one_letter_sequence_
core::Size	length_

Member Typedef Documentation

typedef utility::vector1< core::Size > core::sequence::AnnotatedSequence::PositionMap

private

Constructor & Destructor Documentation

core::sequence::AnnotatedSequence::AnnotatedSequence

(

)

core::sequence::AnnotatedSequence::AnnotatedSequence

(

std::string const &

str_in

)

core::sequence::AnnotatedSequence::AnnotatedSequence ( AnnotatedSequence const &  other )

default

Member Function Documentation

core::chemical::AA core::sequence::AnnotatedSequence::aa

(

core::Size

seqpos

)

const

References core::chemical::aa_from_oneletter_code(), and one_letter().

void core::sequence::AnnotatedSequence::calculate_map ( ) const

private

References core::pack::dunbrack::c, map_is_clean_, one_letter_sequence_, and pos_map_.

Referenced by is_patched(), length(), one_letter(), one_letter_sequence(), and patch_str().

bool core::sequence::AnnotatedSequence::is_patched

(

core::Size

seqpos

)

const

References calculate_map(), map_is_clean_, and pos_map_.

core::Size core::sequence::AnnotatedSequence::length

(

)

const

References calculate_map(), map_is_clean_, and one_letter_sequence_.

Referenced by protocols::topology_broker::claims::SequenceClaim::length().

char core::sequence::AnnotatedSequence::one_letter

(

core::Size

seqpos

)

const

References calculate_map(), map_is_clean_, and pos_map_.

Referenced by aa(), and core::io::silent::SilentStruct::detect_fullatom().

std::string core::sequence::AnnotatedSequence::one_letter_sequence

(

)

const

References calculate_map(), map_is_clean_, and one_letter_sequence_.

Referenced by core::io::silent::SilentStruct::one_letter_sequence().

void core::sequence::AnnotatedSequence::operator=

(

std::string const &

other

)

References map_is_clean_.

AnnotatedSequence & core::sequence::AnnotatedSequence::operator=

(

AnnotatedSequence const &

other

)

References length_, map_is_clean_, one_letter_sequence_, and pos_map_.

std::string core::sequence::AnnotatedSequence::patch_str

(

core::Size

seqpos

)

const

References calculate_map(), map_is_clean_, and pos_map_.

Member Data Documentation

core::Size core::sequence::AnnotatedSequence::length_

mutableprivate

Referenced by operator=().

bool core::sequence::AnnotatedSequence::map_is_clean_

mutableprivate

Referenced by calculate_map(), is_patched(), length(), one_letter(), one_letter_sequence(), operator=(), and patch_str().

std::string core::sequence::AnnotatedSequence::one_letter_sequence_

mutableprivate

Referenced by calculate_map(), length(), one_letter_sequence(), and operator=().

PositionMap core::sequence::AnnotatedSequence::pos_map_

mutableprivate

Referenced by calculate_map(), is_patched(), one_letter(), operator=(), and patch_str().

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The documentation for this class was generated from the following files:

• src/core/sequence/AnnotatedSequence.hh
• src/core/sequence/AnnotatedSequence.cc