protocols::design_opt Namespace Reference

Classes
class	GreedyOptMutationMover
class	GreedyOptMutationMoverCreator
class	ParetoOptMutationMover
class	ParetoOptMutationMoverCreator
class	PointMutationCalculator

Typedefs
typedef utility::pointer::owning_ptr < GreedyOptMutationMover >	GreedyOptMutationMoverOP
typedef utility::pointer::owning_ptr < GreedyOptMutationMover const >	GreedyOptMutationMoverCOP
typedef utility::pointer::owning_ptr < ParetoOptMutationMover >	ParetoOptMutationMoverOP
typedef utility::pointer::owning_ptr < ParetoOptMutationMover const >	ParetoOptMutationMoverCOP
typedef utility::pointer::owning_ptr < PointMutationCalculator >	PointMutationCalculatorOP
typedef utility::pointer::owning_ptr < PointMutationCalculator const >	PointMutationCalculatorCOP

Functions
static basic::Tracer	TR ("protocols.design_opt.GreedyOptMutationMover")
static numeric::random::RandomGenerator	RG (27188)
bool	cmp_pair_by_second (pair< Size, Real > const pair1, pair< Size, Real > const pair2)
bool	cmp_pair_by_first_vec_val (pair< AA, vector1< Real > > const pair1, pair< AA, vector1< Real > > const pair2)
bool	cmp_pair_vec_by_first_vec_val (pair< Size, vector1< pair< AA, vector1< Real > > > > const pair1, pair< Size, vector1< pair< AA, vector1< Real > > > > const pair2)
void	calc_pareto_front (vector1< vector1< Real > > const &coords, vector1< bool > &is_pfront)
void	filter_pareto_opt_poses (vector1< pose::Pose > &poses, vector1< vector1< Real > > &vals)
static basic::Tracer	TR ("protocols.design_opt.ParetoOptMutationMover")
static basic::Tracer	TR ("protocols.design_opt.PointMutationCalculator")
static numeric::random::RandomGenerator	RG (54)
void	insert_point_mut_filter_vals (Size const seqpos, chemical::AA const aa, vector1< Real > const vals, vector1< pair< Size, vector1< pair< AA, vector1< Real > > > > > &seqpos_aa_vals_vec)

Typedef Documentation

typedef utility::pointer::owning_ptr< GreedyOptMutationMover const > protocols::design_opt::GreedyOptMutationMoverCOP

Definition at line 27 of file GreedyOptMutationMover.fwd.hh.

typedef utility::pointer::owning_ptr< GreedyOptMutationMover > protocols::design_opt::GreedyOptMutationMoverOP

Definition at line 25 of file GreedyOptMutationMover.fwd.hh.

typedef utility::pointer::owning_ptr< ParetoOptMutationMover const > protocols::design_opt::ParetoOptMutationMoverCOP

Definition at line 27 of file ParetoOptMutationMover.fwd.hh.

typedef utility::pointer::owning_ptr< ParetoOptMutationMover > protocols::design_opt::ParetoOptMutationMoverOP

Definition at line 25 of file ParetoOptMutationMover.fwd.hh.

typedef utility::pointer::owning_ptr< PointMutationCalculator const > protocols::design_opt::PointMutationCalculatorCOP

Definition at line 27 of file PointMutationCalculator.fwd.hh.

typedef utility::pointer::owning_ptr< PointMutationCalculator > protocols::design_opt::PointMutationCalculatorOP

Definition at line 25 of file PointMutationCalculator.fwd.hh.

Function Documentation

void protocols::design_opt::calc_pareto_front	(	vector1< vector1< Real > > const &	coords,
		vector1< bool > &	is_pfront
	)

Definition at line 389 of file GreedyOptMutationMover.cc.

References core::io::serialization::size().

Referenced by filter_pareto_opt_poses(), and protocols::design_opt::GreedyOptMutationMover::filter_seqpos_pareto_opt_ptmuts().

bool protocols::design_opt::cmp_pair_by_first_vec_val	(	pair< AA, vector1< Real > > const	pair1,
		pair< AA, vector1< Real > > const	pair2
	)

Definition at line 312 of file GreedyOptMutationMover.cc.

Referenced by protocols::design_opt::GreedyOptMutationMover::apply().

bool protocols::design_opt::cmp_pair_by_second	(	pair< Size, Real > const	pair1,
		pair< Size, Real > const	pair2
	)

Definition at line 304 of file GreedyOptMutationMover.cc.

Referenced by protocols::design_opt::GreedyOptMutationMover::calc_pfront_poses_filter_ranks().

bool protocols::design_opt::cmp_pair_vec_by_first_vec_val	(	pair< Size, vector1< pair< AA, vector1< Real > > > > const	pair1,
		pair< Size, vector1< pair< AA, vector1< Real > > > > const	pair2
	)

Definition at line 320 of file GreedyOptMutationMover.cc.

Referenced by protocols::design_opt::GreedyOptMutationMover::apply().

void protocols::design_opt::filter_pareto_opt_poses	(	vector1< pose::Pose > &	poses,
		vector1< vector1< Real > > &	vals
	)

Definition at line 449 of file GreedyOptMutationMover.cc.

References calc_pareto_front().

Referenced by protocols::design_opt::GreedyOptMutationMover::apply().

void protocols::design_opt::insert_point_mut_filter_vals	(	Size const	seqpos,
		chemical::AA const	aa,
		vector1< Real > const	vals,
		vector1< pair< Size, vector1< pair< AA, vector1< Real > > > > > &	seqpos_aa_vals_vec
	)

Definition at line 427 of file PointMutationCalculator.cc.

References core::chemical::oneletter_code_from_aa(), and core::scoring::pair.

static numeric::random::RandomGenerator protocols::design_opt::RG ( 27188  )

static

Referenced by protocols::design_opt::GreedyOptMutationMover::apply().

static numeric::random::RandomGenerator protocols::design_opt::RG ( 54  )

static

static basic::Tracer protocols::design_opt::TR ( "protocols.design_opt.GreedyOptMutationMover"  )

static

static basic::Tracer protocols::design_opt::TR ( "protocols.design_opt.ParetoOptMutationMover"  )

static

static basic::Tracer protocols::design_opt::TR ( "protocols.design_opt.PointMutationCalculator"  )

static