protocols::frag_picker::GrabAllCollector Class Reference

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

#include <GrabAllCollector.hh>

Public Member Functions
	GrabAllCollector (Size query_size)
	create a collector for a given size of a query sequence More...
bool	add (ScoredCandidate new_canditate)
	Insert a fragment candidate to the container. More...
void	clear ()
	removes all candidates from the container More...
void	print_report (std::ostream &output, scores::FragmentScoreManagerOP) const
	prints how many fragments have been collected for each position More...
Size	count_candidates (Size seq_pos) const
	Check how many candidates have been already collected for a given position. More...
Size	count_candidates () const
	Check how many candidates have been already collected for all positions. More...
Size	query_length () const
	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 (Size pos, CandidatesCollectorOP collector)
	Inserts candidates from another Collector for a give position in the query. More...
virtual ScoredCandidatesVector1 &	get_candidates (Size position_in_query)
	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.

Detailed: 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 ( Size  query_size )

inline

create a collector for a given size of a query sequence

References storage_.

Member Function Documentation

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

inlinevirtual

Insert a fragment candidate to the container.

Implements protocols::frag_picker::CandidatesCollector.

References storage_.

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

inlinevirtual

removes all candidates from the container

Implements protocols::frag_picker::CandidatesCollector.

References storage_.

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

inlinevirtual

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

Implements protocols::frag_picker::CandidatesCollector.

References storage_.

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

inlinevirtual

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

Implements protocols::frag_picker::CandidatesCollector.

References size(), and storage_.

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

inlinevirtual

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 ( Size  pos, CandidatesCollectorOP  collector  )

inlinevirtual

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

Implements protocols::frag_picker::CandidatesCollector.

References c, j, l, storage_, and utility_exit_with_message.

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

inlinevirtual

prints how many fragments have been collected for each position

Implements protocols::frag_picker::CandidatesCollector.

References protocols::abinitio::abscript::I, size(), and storage_.

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

inlinevirtual

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().

---

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

• symlinks/rosetta/src/protocols/frag_picker/GrabAllCollector.hh