#include <PeakFileFormat.hh>

Inheritance diagram for protocols::noesy_assign::PeakFileFormat_Base:

Public Member Functions
	PeakFileFormat_Base ()

	~PeakFileFormat_Base () override

virtual void	write_peak (std::ostream &, core::Size ct, CrossPeak const &) const =0

virtual void	write_resonances (std::ostream &, CrossPeak const &) const =0

virtual void	write_strength (std::ostream &, CrossPeak const &) const =0

virtual void	write_assignments (std::ostream &, CrossPeak const &, std::string const &first_line_end) const =0

virtual void	read_resonances (std::istream &, CrossPeak &) const =0

virtual void	read_assignments (std::istream &is, std::istream &rest_line, CrossPeak &, std::string &new_peak_line) const =0

virtual void	read_strength (std::istream &, CrossPeak &) const =0

void	set_filename (std::string str)

std::string const &	filename () const

virtual void	set_format_from_peak (CrossPeak const &)=0

virtual void	write_header (std::ostream &)=0

virtual bool	compatible_with_current_format (CrossPeak const &) const =0

virtual CrossPeakOP	read_peak (std::istream &, std::string &next_line) const =0

virtual void	output_diagnosis (std::ostream &) const

virtual void	read_header (std::istream &, std::string &next_line)=0

bool	ignore_assignments () const

void	set_ignore_assignments (bool setting=true)

bool	write_only_highest_VC () const

void	set_write_only_highest_VC (bool setting=true)

core::Real	min_VC_to_write () const

void	set_min_VC_to_write (core::Real setting)

bool	ignore_negative_intensity () const

void	set_ignore_negative_intensity (bool setting=true)

void	set_minimum_peak_intensity (core::Real setting)

core::Real	minimum_peak_intensity () const

Protected Attributes
CrossPeakInfoOP	info1_

CrossPeakInfoOP	info2_

std::string	filename_

Private Attributes
bool	ignore_assignments_

core::Real	min_VC_to_write_

bool	write_only_highest_VC_

bool	ignore_negative_intensity_

core::Real	minimum_peak_intensity_

Constructor & Destructor Documentation

protocols::noesy_assign::PeakFileFormat_Base::PeakFileFormat_Base ( )

inline

protocols::noesy_assign::PeakFileFormat_Base::~PeakFileFormat_Base ( )

inlineoverride

References filename(), info1_, and info2_.

Member Function Documentation

virtual bool protocols::noesy_assign::PeakFileFormat_Base::compatible_with_current_format ( CrossPeak const & ) const

pure virtual

Implemented in protocols::noesy_assign::PeakFileFormat.

std::string const& protocols::noesy_assign::PeakFileFormat_Base::filename ( ) const

inline

References filename_.

Referenced by ~PeakFileFormat_Base().

bool protocols::noesy_assign::PeakFileFormat_Base::ignore_assignments ( ) const

inline

References ignore_assignments_.

bool protocols::noesy_assign::PeakFileFormat_Base::ignore_negative_intensity ( ) const

inline

References ignore_negative_intensity_.

Referenced by protocols::noesy_assign::CrossPeakList::read_from_stream().

core::Real protocols::noesy_assign::PeakFileFormat_Base::min_VC_to_write ( ) const

inline

References min_VC_to_write_.

core::Real protocols::noesy_assign::PeakFileFormat_Base::minimum_peak_intensity ( ) const

inline

References minimum_peak_intensity_.

Referenced by protocols::noesy_assign::CrossPeakList::read_from_stream().

virtual void protocols::noesy_assign::PeakFileFormat_Base::output_diagnosis ( std::ostream & ) const

inlinevirtual

Reimplemented in protocols::noesy_assign::PeakFileFormat.

virtual void protocols::noesy_assign::PeakFileFormat_Base::read_assignments	(	std::istream &	is,
		std::istream &	rest_line,
		CrossPeak &	,
		std::string &	new_peak_line
	)		const

pure virtual

Implemented in protocols::noesy_assign::PeakFileFormat.

virtual void protocols::noesy_assign::PeakFileFormat_Base::read_header	(	std::istream &	,
		std::string &	next_line
	)

pure virtual

Implemented in protocols::noesy_assign::PeakFileFormat.

virtual CrossPeakOP protocols::noesy_assign::PeakFileFormat_Base::read_peak	(	std::istream &	,
		std::string &	next_line
	)		const

pure virtual

Implemented in protocols::noesy_assign::PeakFileFormat.

virtual void protocols::noesy_assign::PeakFileFormat_Base::read_resonances	(	std::istream &	,
		CrossPeak &
	)		const

pure virtual

Implemented in protocols::noesy_assign::PeakFileFormat.

virtual void protocols::noesy_assign::PeakFileFormat_Base::read_strength	(	std::istream &	,
		CrossPeak &
	)		const

pure virtual

Implemented in protocols::noesy_assign::PeakFileFormat.

void protocols::noesy_assign::PeakFileFormat_Base::set_filename ( std::string str )

inline

References filename_, and protocols::kinmatch::str().

Referenced by protocols::noesy_assign::NoesyModule::read_input_files().

virtual void protocols::noesy_assign::PeakFileFormat_Base::set_format_from_peak ( CrossPeak const & )

pure virtual

Implemented in protocols::noesy_assign::PeakFileFormat, protocols::noesy_assign::PeakFileFormat_Sparky, and protocols::noesy_assign::PeakFileFormat_xpk.

void protocols::noesy_assign::PeakFileFormat_Base::set_ignore_assignments ( bool setting = true )

inline

References ignore_assignments_.

Referenced by protocols::noesy_assign::NoesyModule::read_input_files().

void protocols::noesy_assign::PeakFileFormat_Base::set_ignore_negative_intensity ( bool setting = true )

inline

References ignore_negative_intensity_.

void protocols::noesy_assign::PeakFileFormat_Base::set_min_VC_to_write ( core::Real setting )

inline

References min_VC_to_write_.

void protocols::noesy_assign::PeakFileFormat_Base::set_minimum_peak_intensity ( core::Real setting )

inline

References minimum_peak_intensity_.

void protocols::noesy_assign::PeakFileFormat_Base::set_write_only_highest_VC ( bool setting = true )

inline

References write_only_highest_VC_.

virtual void protocols::noesy_assign::PeakFileFormat_Base::write_assignments	(	std::ostream &	,
		CrossPeak const &	,
		std::string const &	first_line_end
	)		const