AA.cc File Reference

translation between amino acid enum and string name/one letter char codes More...

#include <core/chemical/AA.hh>
#include <utility/exit.hh>
#include <map>
#include <utility/vector1_bool.hh>
#include <sstream>

Namespaces
	core
	A class for defining atom parameters, known as atom_types.
	core::chemical

Functions
std::map< std::string, AA >	core::chemical::setup_name2aa ()
	setup the map that converts string name to AA enum More...
std::map< char, AA >	core::chemical::setup_oneletter2aa ()
	setup the map the converts one letter char to AA enum More...
std::map< std::string, AA > &	core::chemical::name2aa ()
	map that converts string name to AA enum More...
std::map< char, AA > &	core::chemical::oneletter2aa ()
	map that converts one letter char to AA enum More...
utility::vector1< std::string >	core::chemical::setup_aa2name ()
	setup the vector that maps AA enum to string name More...
utility::vector1< std::string > &	core::chemical::aa2name ()
	vector that maps AA enum to string name More...
utility::vector1< char >	core::chemical::setup_aa2oneletter ()
	setup the vector that maps AA enum to one letter char More...
utility::vector1< char > &	core::chemical::aa2oneletter ()
	vector that maps AA enum to one letter char More...
AA	core::chemical::aa_from_name (std::string const &name)
	Give an AA string name, return its enum type. More...
bool	core::chemical::is_canonical_D_aa (AA aa)
	Give an enum type, return true if and only if it is a D-amino acid that is the mirror image of a canonical alpha-L-amino acid. More...
AA	core::chemical::get_L_equivalent (AA aa)
	Given an enum type for a D-amino acid with a canonical side-chain, return the enum type for the corresponding L-amino acid (or aa_unk if the corresponding L-amino acid cannot be determined). More...
AA	core::chemical::get_D_equivalent (AA aa)
	Given an enum type for a L-amino acid with a canonical side-chain, return the enum type for the corresponding D-amino acid (or aa_unk if the corresponding D-amino acid cannot be determined). More...
std::istream &	core::chemical::operator>> (std::istream &is, AA &aa)
	input operator for AA enum type More...
std::ostream &	core::chemical::operator<< (std::ostream &os, AA const &aa)
	output operator for AA enum type More...
std::string	core::chemical::name_from_aa (AA aa)
	give a enum type and return the string name More...
char	core::chemical::oneletter_code_from_aa (AA aa)
	give a enum type and return the string name More...
AA	core::chemical::aa_from_oneletter_code (char onelettercode)
	give a 1 letter code and return the string name More...
bool	core::chemical::oneletter_code_specifies_aa (char onelettercode)

Detailed Description

translation between amino acid enum and string name/one letter char codes

Author

Phil Bradley