#include <ResfileReader.hh>

Public Member Functions
	ResfileContents (pose::Pose const &pose, std::istream &istream)

virtual	~ResfileContents ()

std::list< ResfileCommandCOP > const &	default_commands () const

bool	specialized_commands_exist_for_residue (Size resid) const

std::list< ResfileCommandCOP > const &	commands_for_residue (Size resid) const

Private Types
enum	residue_identifier_type { SINGLE_RESID =1, RANGE_RESID, CHAIN_RESID }

Private Member Functions
void	parse_header_line (utility::vector1< std::string > const &tokens, std::map< std::string, ResfileCommandOP > const &command_map, Size const lineno, bool &have_read_start_token)

void	parse_body_line (pose::Pose const &pose, utility::vector1< std::string > const &tokens, std::map< std::string, ResfileCommandOP > const &command_map, Size const lineno, utility::vector1< std::list< ResfileCommandOP > > &residue_range_commands, utility::vector1< std::list< ResfileCommandOP > > &residue_chain_commands)

void	parse_resid (Size &which_token, utility::vector1< std::string > const &tokens, Size const lineno, int &PDBnum, int &PDBnum_end, char &icode, char &icode_end, char &chain, residue_identifier_type &id_type) const

void	parse_PDBnum_icode (std::string const &token, Size const lineno, int &PDBnum, char &icode) const

Size	locate_resid (core::pose::Pose const &pose, char const chain, Size const PDBnum, char const icode, Size const lineno) const

ResfileCommandOP	locate_command (Size const which_token, utility::vector1< std::string > const &tokens, std::map< std::string, ResfileCommandOP > const &command_map, Size const lineno) const

Private Attributes
std::list< ResfileCommandCOP >	default_commands_

utility::vector1< std::list < ResfileCommandCOP > >	commands_

Member Enumeration Documentation

enum core::pack::task::ResfileContents::residue_identifier_type

private

Enumerator
SINGLE_RESID
RANGE_RESID
CHAIN_RESID

Constructor & Destructor Documentation

core::pack::task::ResfileContents::ResfileContents	(	pose::Pose const &	pose,
		std::istream &	istream
	)

References begin, commands_, core::pack::task::comment_begin(), core::pack::task::create_command_map(), default_commands(), empty, core::sequence::end, parse_body_line(), parse_header_line(), core::pack::task::tokenize_line(), core::pose::Pose::total_residue(), and core::pack::task::TR.

core::pack::task::ResfileContents::~ResfileContents ( )

virtual

Member Function Documentation

std::list< ResfileCommandCOP > const & core::pack::task::ResfileContents::commands_for_residue ( Size resid ) const

References commands_, utility::to_string(), and utility_exit_with_message.

Referenced by core::pack::task::parse_resfile_string(), and core::pack::task::operation::ReadResfileAndObeyLengthEvents::resfile_commands().

std::list< ResfileCommandCOP > const & core::pack::task::ResfileContents::default_commands ( ) const

References default_commands_.

Referenced by core::pack::task::parse_resfile_string(), core::pack::task::operation::ReadResfileAndObeyLengthEvents::resfile_commands(), and ResfileContents().

ResfileCommandOP core::pack::task::ResfileContents::locate_command	(	Size const	which_token,
		utility::vector1< std::string > const &	tokens,
		std::map< std::string, ResfileCommandOP > const &	command_map,
		Size const	lineno
	)		const

private

References core::pack::task::get_token(), and core::pack::task::onError().

Referenced by parse_body_line(), and parse_header_line().

Size core::pack::task::ResfileContents::locate_resid	(	core::pose::Pose const &	pose,
		char const	chain,
		Size const	PDBnum,
		char const	icode,
		Size const	lineno
	)		const

private

References core::pack::task::onError(), core::pose::Pose::pdb_info(), and core::pose::Pose::total_residue().

Referenced by parse_body_line().

void core::pack::task::ResfileContents::parse_body_line	(	pose::Pose const &	pose,
		utility::vector1< std::string > const &	tokens,
		std::map< std::string, ResfileCommandOP > const &	command_map,
		Size const	lineno,
		utility::vector1< std::list< ResfileCommandOP > > &	residue_range_commands,
		utility::vector1< std::list< ResfileCommandOP > > &	residue_chain_commands
	)

private

@ details Parse body line in resfile expected formats: <residue identifier>=""> <chain identifier>=""> <commands*> <residue identifier>=""> - <residue identifier>=""> <chain identifier>=""> <commands*>

<chain identifer>=""> <commands*>

The here is how a residue specification is resolved if it is specified multiple times:

1) If a residue is specified by multiple commands of the same level (SINGLE, RANGE, or CHAIN), then this is an error 2) If a residue is specified by multiple commands of different levels then the more restricted level takes precidence, SINGLE over RANGE and CHAIN, and RANGE over CHAIN

References chain, CHAIN_RESID, commands_, core::pack::task::comment_begin(), locate_command(), locate_resid(), core::pack::task::onError(), parse_resid(), core::pose::Pose::pdb_info(), RANGE_RESID, runtime_assert, SINGLE_RESID, core::pose::Pose::total_residue(), and utility_exit_with_message.

Referenced by ResfileContents().

void core::pack::task::ResfileContents::parse_header_line	(	utility::vector1< std::string > const &	tokens,
		std::map< std::string, ResfileCommandOP > const &	command_map,
		Size const	lineno,
		bool &	have_read_start_token
	)

private

References core::pack::task::comment_begin(), default_commands_, core::pack::task::get_token(), and locate_command().

Referenced by ResfileContents().

void core::pack::task::ResfileContents::parse_PDBnum_icode	(	std::string const &	token,
		Size const	lineno,
		int &	PDBnum,
		char &	icode
	)		const

private

References core::pack::task::onError().

Referenced by parse_resid().

void core::pack::task::ResfileContents::parse_resid	(	Size &	which_token,
		utility::vector1< std::string > const &	tokens,
		Size const	lineno,
		int &	PDBnum,
		int &	PDBnum_end,
		char &	icode,
		char &	icode_end,
		char &	chain,
		residue_identifier_type &	id_type
	)		const