database_io.hh File Reference

Database input/output function declarations for carbohydrate-specific data. More...

#include <core/chemical/carbohydrates/SugarModificationsNomenclatureTable.hh>
#include <core/chemical/carbohydrates/LinkageConformers.hh>
#include <core/chemical/carbohydrates/CarbohydrateInfoManager.hh>
#include <core/types.hh>
#include <utility/vector1.hh>
#include <map>
#include <iosfwd>

Namespaces
	core
	A class for reading in the atom type properties.
	core::chemical
	core::chemical::carbohydrates

Functions
std::string	core::chemical::carbohydrates::find_glycan_sequence_file (std::string filename)
	Try various combinations to locate the specific glycan sequence file being requested by the user. More...
std::string	core::chemical::carbohydrates::read_glycan_sequence_file (std::string filename)
	Read a single-line glycan sequence file. More...
std::map< std::string, RootData >	core::chemical::carbohydrates::read_codes_and_roots_from_database_file (std::string const &filename)
	Return a map of strings to strings, which are saccharide-specific 3-letter codes mapped to IUPAC roots, read from a database file. More...
std::map< core::Size, std::pair< char, std::string > >	core::chemical::carbohydrates::read_ring_sizes_and_morphemes_from_database_file (std::string const &filename)
	Return a map of Sizes to pairs of char and string, which are ring sizes mapped to 1-letter affixes and morphemes, respectively, read from a database file. More...
SugarModificationsNomenclatureTable	core::chemical::carbohydrates::read_nomenclature_table_from_database_file (std::string const &filename)
	Return a table of nomenclature data for sugar modifications, read from a database file. More...
LinkageConformers	core::chemical::carbohydrates::read_linkage_conformers_from_database_file (std::string const &filename)
	Return a map of linkage conformer data, read from a database file. More...
std::map< std::string, std::string >	core::chemical::carbohydrates::read_short_names_to_iupac_format_string (std::string const &dir, std::string common_mapping_path)
	Return a map of short names to IUPAC formatted strings. Reads from db_dir/common_names.txt and loads the IUPAC files as strings. More...

Detailed Description

Database input/output function declarations for carbohydrate-specific data.

Author

Labonte JWLab.nosp@m.onte.nosp@m.@jhu..nosp@m.edu