protocols::frag_picker::GrabAllCollector Class Reference

Keeps all fragments candidates for the final selection. More...

#include <GrabAllCollector.hh>

Inheritance diagram for protocols::frag_picker::GrabAllCollector:

Public Member Functions
	GrabAllCollector (core::Size query_size)
	create a collector for a given size of a query sequence More...
bool	add (ScoredCandidate new_canditate) override
	Insert a fragment candidate to the container. More...
void	clear () override
	removes all candidates from the container More...
void	print_report (std::ostream &output, scores::FragmentScoreManagerOP) const override
	prints how many fragments have been collected for each position More...
core::Size	count_candidates (core::Size seq_pos) const override
	Check how many candidates have been already collected for a given position. More...
core::Size	count_candidates () const override
	Check how many candidates have been already collected for all positions. More...
core::Size	query_length () const override
	Check the size of query sequence that this object knows. This is mainly to be able to check if it is the same as in the other parts of fragment picking machinery. More...
void	insert (core::Size pos, CandidatesCollectorOP collector) override
	Inserts candidates from another Collector for a give position in the query. More...
ScoredCandidatesVector1 &	get_candidates (core::Size position_in_query) override
	returns all stored fragment candidates that begins at a given position in a query More...

Private Attributes
utility::vector1 < ScoredCandidatesVector1 >	storage_

Detailed Description

Keeps all fragments candidates for the final selection.

The purpose of a collector is to keep fragment candidates to the end of vall processing. This simple implementation keeps all candidates which might use huge memory

Constructor & Destructor Documentation

protocols::frag_picker::GrabAllCollector::GrabAllCollector ( core::Size  query_size )

inline

create a collector for a given size of a query sequence

References core::scoring::pair, and storage_.

Member Function Documentation

bool protocols::frag_picker::GrabAllCollector::add ( ScoredCandidate  new_canditate )

inlineoverridevirtual

Insert a fragment candidate to the container.

Implements protocols::frag_picker::CandidatesCollector.

References storage_.

void protocols::frag_picker::GrabAllCollector::clear ( )

inlineoverridevirtual

removes all candidates from the container

Implements protocols::frag_picker::CandidatesCollector.

References storage_.

core::Size protocols::frag_picker::GrabAllCollector::count_candidates ( core::Size  seq_pos ) const

inlineoverridevirtual

Check how many candidates have been already collected for a given position.

Implements protocols::frag_picker::CandidatesCollector.

References storage_.

core::Size protocols::frag_picker::GrabAllCollector::count_candidates ( ) const

inlineoverridevirtual

Check how many candidates have been already collected for all positions.

Implements protocols::frag_picker::CandidatesCollector.

References storage_.

ScoredCandidatesVector1& protocols::frag_picker::GrabAllCollector::get_candidates ( core::Size  position_in_query )

inlineoverridevirtual

returns all stored fragment candidates that begins at a given position in a query

Implements protocols::frag_picker::CandidatesCollector.

References storage_.

void protocols::frag_picker::GrabAllCollector::insert ( core::Size  pos, CandidatesCollectorOP  collector  )

inlineoverridevirtual

Inserts candidates from another Collector for a give position in the query.

Implements protocols::frag_picker::CandidatesCollector.

References core::pack::dunbrack::c, and storage_.

void protocols::frag_picker::GrabAllCollector::print_report ( std::ostream &  output, scores::FragmentScoreManagerOP    ) const

inlineoverridevirtual

prints how many fragments have been collected for each position

Implements protocols::frag_picker::CandidatesCollector.

References core::chemical::element::I, and storage_.

core::Size protocols::frag_picker::GrabAllCollector::query_length ( ) const

inlineoverridevirtual

Check the size of query sequence that this object knows. This is mainly to be able to check if it is the same as in the other parts of fragment picking machinery.

Implements protocols::frag_picker::CandidatesCollector.

References storage_.

Member Data Documentation

utility::vector1< ScoredCandidatesVector1 > protocols::frag_picker::GrabAllCollector::storage_

private

Referenced by add(), clear(), count_candidates(), get_candidates(), GrabAllCollector(), insert(), print_report(), and query_length().

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

• src/protocols/frag_picker/GrabAllCollector.hh