protocols::frag_picker::scores::FragmentCrmsdResDepth Class Reference

scores a fragment by its crmsd to the given reference structure More...

#include <FragmentCrmsdResDepth.hh>

Inheritance diagram for protocols::frag_picker::scores::FragmentCrmsdResDepth:

Collaboration diagram for protocols::frag_picker::scores::FragmentCrmsdResDepth:

List of all members.

Public Member Functions
	FragmentCrmsdResDepth (Size, Real, bool, core::pose::PoseOP, utility::vector1< core::Real > &query_residue_depth)
	creates a crmsd-based scoring function.
	FragmentCrmsdResDepth (Size, Real, bool, utility::vector1< utility::vector1< Real > >, utility::vector1< core::Real > &query_residue_depth)
	creates a crmsd-based scoring function.
	~FragmentCrmsdResDepth ()
void	do_caching (VallChunkOP)
void	clean_up ()
bool	score (FragmentCandidateOP, FragmentScoreMapOP)
bool	cached_score (FragmentCandidateOP, FragmentScoreMapOP)

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Detailed Description

scores a fragment by its crmsd to the given reference structure

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Constructor & Destructor Documentation

protocols::frag_picker::scores::FragmentCrmsdResDepth::FragmentCrmsdResDepth	(	Size	priority,
		Real	lowest_acceptable_value,
		bool	use_lowest,
		core::pose::PoseOP	reference_pose,
		utility::vector1< core::Real > &	query_residue_depth
	)

creates a crmsd-based scoring function.

Detailed: fragments will be compared to a given pose, which should have the same number of residues a the query sequence

protocols::frag_picker::scores::FragmentCrmsdResDepth::FragmentCrmsdResDepth	(	Size	priority,
		Real	lowest_acceptable_value,
		bool	use_lowest,
		utility::vector1< utility::vector1< Real > >	xyz,
		utility::vector1< core::Real > &	query_residue_depth
	)

creates a crmsd-based scoring function.

Detailed: fragments will be compared to given coordinates, which should have the same number of residues a the query sequence

References make_table_of_pilot_apps::d, protocols::frag_picker::scores::trRmsScore(), and protocols::kinmatch::xyz().

protocols::frag_picker::scores::FragmentCrmsdResDepth::~FragmentCrmsdResDepth

(

)

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Member Function Documentation

bool protocols::frag_picker::scores::FragmentCrmsdResDepth::cached_score	(	FragmentCandidateOP	fragment,
		FragmentScoreMapOP	scores
	)		[virtual]

Reimplemented from protocols::frag_picker::scores::CachingScoringMethod.

References make_table_of_pilot_apps::d, do_caching(), protocols::frag_picker::scores::FragmentScoringMethod::id_, protocols::frag_picker::scores::FragmentScoringMethod::lowest_acceptable_value_, core::scoring::rms, and protocols::frag_picker::scores::FragmentScoringMethod::use_lowest_.

void protocols::frag_picker::scores::FragmentCrmsdResDepth::clean_up

(

)

[virtual]

Implements protocols::frag_picker::scores::CachingScoringMethod.

void protocols::frag_picker::scores::FragmentCrmsdResDepth::do_caching

(

VallChunkOP

current_chunk

)

[virtual]

Implements protocols::frag_picker::scores::CachingScoringMethod.

Referenced by cached_score().

bool protocols::frag_picker::scores::FragmentCrmsdResDepth::score	(	FragmentCandidateOP	f,
		FragmentScoreMapOP	empty_map
	)		[virtual]

Reimplemented from protocols::frag_picker::scores::CachingScoringMethod.

References protocols::frag_picker::scores::FragmentScoringMethod::id_, protocols::frag_picker::scores::FragmentScoringMethod::lowest_acceptable_value_, core::scoring::rms, and protocols::frag_picker::scores::FragmentScoringMethod::use_lowest_.

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

• src/protocols/frag_picker/scores/FragmentCrmsdResDepth.hh
• src/protocols/frag_picker/scores/FragmentCrmsdResDepth.cc