helper class for the MatcherMover that will put a match into a supplied pose More...

#include <PDBWriter.hh>

Public Types
typedef CloudPDBWriter	parent

Public Types inherited from protocols::match::output::CloudPDBWriter
typedef PDBWriter	parent

typedef utility::vector1 < std::set< upstream_hit > >	UpstreamHitSets

typedef utility::vector1 < std::set< downstream_hit > >	DownstreamHitSets

Public Types inherited from protocols::match::output::PDBWriter
typedef std::pair< core::Size, core::Size >	SizePair

typedef OutputWriter	Parent

Public Member Functions
	PoseMatchOutputWriter (MatchGrouperOP grouper)

	~PoseMatchOutputWriter ()

void	insert_match_into_pose (core::pose::Pose &pose, core::Size match_group)

void	insert_match_into_pose (core::pose::Pose &pose)

void	end_output_writing ()
	this function doesn't do anything, but needs to exist to suppress the unwanted call to the base class function More...

Public Member Functions inherited from protocols::match::output::CloudPDBWriter
	CloudPDBWriter (MatchGrouperOP grouper)

virtual	~CloudPDBWriter ()

virtual void	prepare_for_output_writing ()

virtual void	record_match (match const &m, MatchEvaluatorOP evaluator, MatchScoreWriterOP match_score_writer)
	no writing in this function, only saving the hits according to what group they belong to More...

virtual void	record_match (match_dspos1 const &m)
	evaluator and score writer are not passed in because single-downstream-position match currently have no way of being evaluated More...

void	write_match_groups ()
	this is where the actual writing happens More...

utility::vector1 < UpstreamHitSets > const &	match_groups_ushits () const

utility::vector1 < DownstreamHitSets > const &	match_groups_dshits () const

utility::vector1< match_dspos1 > const &	representative_group_matches () const

utility::vector1< std::set < downstream_hit > ::const_iterator > const &	ds_hitset_its () const

utility::vector1< std::set < downstream_hit > ::const_iterator > const &	ds_hitset_end_its () const

Public Member Functions inherited from protocols::match::output::PDBWriter
	PDBWriter ()

virtual	~PDBWriter ()

void	set_coordinate_cacher (UpstreamHitCacherOP)

void	set_prefix (std::string const &prefix)

void	initialize_from_matcher_task (MatcherTaskCOP mtask)

void	set_downstream_builder (Size geomcst_id, downstream::DownstreamBuilderCOP dsbuilder)

void	assemble_remark_lines (core::pose::Pose &outpose, utility::vector1< core::conformation::ResidueCOP > const &upstream_matchres, std::map< core::Size, core::Size > const &redundant_upstream_res, utility::vector1< core::Size > const &ex_geom_ids_for_upstream_res) const

core::pose::PoseCOP	create_output_upstream_pose (utility::vector1< core::conformation::ResidueCOP > const &upstream_matchres, std::map< core::Size, core::Size > const &redundant_upstream_res, utility::vector1< core::Size > const &ex_geom_ids_for_upstream_res)

std::string	signature_string (utility::vector1< core::conformation::ResidueCOP > const &upstream_matchres) const

core::Size	num_geom_cst () const

std::string	scaf_name () const

std::string	cstfile_name () const

std::string	prefix () const

Public Member Functions inherited from protocols::match::output::OutputWriter
	OutputWriter ()

virtual	~OutputWriter ()

protocols::toolbox::match_enzdes_util::EnzConstraintIOCOP	cst_io () const

void	determine_redundant_upstream_matchres (match_dspos1 const &m, std::map< core::Size, core::Size > &redundant_upstream_res) const
	determine if any upstream res are at the same scaffold position, i.e. if one of them is a backbone interaction the redundant_upstream_res map is a mapping from the redundant geometric constraint id of the redundant residue to the geomcst_id of the "nonredundant" res i.e. if cstres 1 happens to be a cys at position 10 and cstres 3 is a gly at position 10 (and it's backbone is used in satisfying constraint 3), the mapping will contain the 3,1 pair. More...

Additional Inherited Members
Protected Member Functions inherited from protocols::match::output::CloudPDBWriter
void	setup_hitset_iterators_for_group (core::Size const group)

void	clear_match_data ()

Protected Member Functions inherited from protocols::match::output::PDBWriter
UpstreamHitCacherOP	coordinate_cacher ()

utility::vector1 < downstream::DownstreamBuilderCOP > const &	dsbuilders ()

std::string	assemble_outtag (utility::vector1< core::conformation::ResidueCOP > const &upstream_matchres)