protocols::jumping::SameStrand Class Reference

tiny helper class that knows the relative fractions of secondary structure L,H,E so far these fractions can be computed from a FragSet other input strategies are conceivable but not implemented, yet: eg. psipred files, a bunch of poses, More...

#include <SameStrand.hh>

Inheritance diagram for protocols::jumping::SameStrand:

Public Member Functions
	SameStrand (core::fragment::SecondaryStructureOP)
	c'stor compute fractions from fragments More...
	~SameStrand () override
	explicit definitions of c'stor and d'stor More...
	SameStrand (SameStrand const &)
void	show (std::ostream &os) const
	print current choice to stream More...
void	redo () const
	new stochastic choices for strand boundaries More...
bool	eval (core::Size i, core::Size j) const
	return whether residue i and j are on the same strand More...
core::Size	total_residue () const
	... More...

Private Member Functions
void	compute (core::fragment::SecondaryStructure const &ss) const
void	do_strand_sum (core::fragment::SecondaryStructure const &ss) const
void	do_same_strand () const

Private Attributes
ObjexxFCL::FArray2D_bool	same_strand_
	store loop/strand More...
ObjexxFCL::FArray1D_float	strand_sum_
core::Size	total_residue_
	length of FArrays More...
core::fragment::SecondaryStructureOP	secondary_structure_
	ScondaryStructure information — needed permanently for redo() method. More...

Detailed Description

tiny helper class that knows the relative fractions of secondary structure L,H,E so far these fractions can be computed from a FragSet other input strategies are conceivable but not implemented, yet: eg. psipred files, a bunch of poses,

Constructor & Destructor Documentation

protocols::jumping::SameStrand::SameStrand

(

core::fragment::SecondaryStructureOP

ss

)

c'stor compute fractions from fragments

References compute(), and total_residue_.

protocols::jumping::SameStrand::~SameStrand ( )

overridedefault

explicit definitions of c'stor and d'stor

protocols::jumping::SameStrand::SameStrand

(

SameStrand const &

other

)

References same_strand_, secondary_structure_, strand_sum_, and total_residue_.

Member Function Documentation

void protocols::jumping::SameStrand::compute ( core::fragment::SecondaryStructure const &  ss ) const

private

References do_same_strand(), and do_strand_sum().

Referenced by SameStrand().

void protocols::jumping::SameStrand::do_same_strand ( ) const

private

References protocols::mean_field::max(), protocols::mean_field::min(), core::scoring::rg, same_strand_, strand_sum_, and total_residue_.

Referenced by compute(), and redo().

void protocols::jumping::SameStrand::do_strand_sum ( core::fragment::SecondaryStructure const &  ss ) const

private

References core::fragment::SecondaryStructure::strand_fraction(), strand_sum_, core::fragment::SecondaryStructure::total_residue(), and total_residue_.

Referenced by compute().

bool protocols::jumping::SameStrand::eval	(	core::Size	i,
		core::Size	j
	)		const

return whether residue i and j are on the same strand

References same_strand_, and total_residue_.

Referenced by show().

void protocols::jumping::SameStrand::redo

(

)

const

new stochastic choices for strand boundaries

References do_same_strand(), and secondary_structure_.

void protocols::jumping::SameStrand::show

(

std::ostream &

os

)

const

print current choice to stream

write to stream ( opposite from read_from_file )

References eval(), and total_residue_.

Referenced by protocols::jumping::operator<<().

core::Size protocols::jumping::SameStrand::total_residue ( ) const

inline

...

References total_residue_.

Member Data Documentation

ObjexxFCL::FArray2D_bool protocols::jumping::SameStrand::same_strand_

mutableprivate

store loop/strand

Referenced by do_same_strand(), eval(), and SameStrand().

core::fragment::SecondaryStructureOP protocols::jumping::SameStrand::secondary_structure_

private

ScondaryStructure information — needed permanently for redo() method.

Referenced by redo(), and SameStrand().

ObjexxFCL::FArray1D_float protocols::jumping::SameStrand::strand_sum_

mutableprivate

Referenced by do_same_strand(), do_strand_sum(), and SameStrand().

core::Size protocols::jumping::SameStrand::total_residue_

private

length of FArrays

Referenced by do_same_strand(), do_strand_sum(), eval(), SameStrand(), show(), and total_residue().

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

• src/protocols/jumping/SameStrand.hh
• src/protocols/jumping/SameStrand.cc