#include <TrajectoryMapFeatures.hh>

Public Member Functions
	TrajectoryMapFeatures ()

	TrajectoryMapFeatures (TrajectoryMapFeatures const &src)

virtual	~TrajectoryMapFeatures ()

std::string	type_name () const
	return string with class name More...

virtual void	write_schema_to_db (utility::sql_database::sessionOP db_session) const
	generate the table schemas and write them to the database More...

utility::vector1< std::string >	features_reporter_dependencies () const
	return the set of features reporters that are required to also already be extracted by the time this one is used. More...

core::Size	report_features (core::pose::Pose const &pose, utility::vector1< bool > const &relevant_residues, StructureID struct_id, utility::sql_database::sessionOP db_session)
	collect all the feature data for the pose More...

void	delete_record (StructureID struct_id, utility::sql_database::sessionOP db_sesion)

void	set_current_cycle (core::Size stride)

core::Size	get_current_cycle () const

Public Member Functions inherited from protocols::features::FeaturesReporter
	FeaturesReporter ()

virtual	~FeaturesReporter ()
	Automatically generated virtual destructor for class deriving directly from ReferenceCount. More...

virtual std::string	schema () const
	return sql statements that sets up the appropriate tables to contain the features. This should be removed once everything has been moved to the schema generator More...

core::Size	report_features (core::pose::Pose const &, StructureID, utility::sql_database::sessionOP)
	collect all the feature data for the pose. More...

virtual void	parse_my_tag (utility::tag::TagCOP tag, basic::datacache::DataMap &, protocols::filters::Filters_map const &, protocols::moves::Movers_map const &, core::pose::Pose const &)

virtual void	load_into_pose (utility::sql_database::sessionOP, StructureID, core::pose::Pose &)

void	set_relevant_residues_mode (RelevantResiduesMode::T setting)

RelevantResiduesMode::T	get_relevant_residues_mode () const

bool	check_relevant_residues (utility::vector1< bool > const &relevant_residues, core::Size res1) const

bool	check_relevant_residues (utility::vector1< bool > const &relevant_residues, core::Size res1, core::Size res2) const

bool	check_relevant_residues_range (utility::vector1< bool > const &relevant_residues, core::Size res1, core::Size res2) const

bool	check_relevant_residues (utility::vector1< bool > const &relevant_residues, utility::vector1< core::Size > const &residues) const

Private Attributes
core::Size	current_cycle_
	Stores the cycle count for the current pose being saved. More...

Additional Inherited Members
Protected Member Functions inherited from protocols::features::FeaturesReporter
std::string	find_tag (core::pose::Pose const &pose) const

void	delete_records_from_table (std::string const &table_name, StructureID struct_id, utility::sql_database::sessionOP db_session)
	a helper function for deleting data associated with a given structure from feature database WARNING table_name must be sanitized! More...

Protected Attributes inherited from protocols::features::FeaturesReporter
RelevantResiduesMode::T	relevant_residues_mode_

Constructor & Destructor Documentation

protocols::features::TrajectoryMapFeatures::TrajectoryMapFeatures ( )

protocols::features::TrajectoryMapFeatures::TrajectoryMapFeatures ( TrajectoryMapFeatures const & src )

protocols::features::TrajectoryMapFeatures::~TrajectoryMapFeatures ( )

virtual

Member Function Documentation

void protocols::features::TrajectoryMapFeatures::delete_record	(	StructureID	struct_id,
		utility::sql_database::sessionOP	db_sesion
	)

virtual

Reimplemented from protocols::features::FeaturesReporter.

References protocols::features::FeaturesReporter::delete_records_from_table().

utility::vector1< std::string > protocols::features::TrajectoryMapFeatures::features_reporter_dependencies ( ) const

virtual

return the set of features reporters that are required to also already be extracted by the time this one is used.

Reimplemented from protocols::features::FeaturesReporter.

core::Size protocols::features::TrajectoryMapFeatures::get_current_cycle ( ) const

References current_cycle_.

Size protocols::features::TrajectoryMapFeatures::report_features	(	core::pose::Pose const &	pose,
		utility::vector1< bool > const &	relevant_residues,
		StructureID	struct_id,
		utility::sql_database::sessionOP	db_session
	)

virtual

collect all the feature data for the pose

Implements protocols::features::FeaturesReporter.

References basic::database::insert_statement_generator::InsertGenerator::add_column(), basic::database::insert_statement_generator::InsertGenerator::add_row(), current_cycle_, utility::tools::make_vector(), and basic::database::insert_statement_generator::InsertGenerator::write_to_database().

void protocols::features::TrajectoryMapFeatures::set_current_cycle ( core::Size stride )

References current_cycle_.

string protocols::features::TrajectoryMapFeatures::type_name ( ) const

virtual

return string with class name

Reimplemented from protocols::features::FeaturesReporter.

void protocols::features::TrajectoryMapFeatures::write_schema_to_db ( utility::sql_database::sessionOP db_session ) const

virtual

generate the table schemas and write them to the database

Implements protocols::features::FeaturesReporter.

References basic::database::schema_generator::Schema::add_column(), basic::database::schema_generator::Schema::add_foreign_key(), and basic::database::schema_generator::Schema::write().

Member Data Documentation

core::Size protocols::features::TrajectoryMapFeatures::current_cycle_

private

Stores the cycle count for the current pose being saved.

Rather than storing the cycle count in pose (where it might be arbitrarily cleared), we are counting cycles/steps by mapping to output tag. Since the features reporter does not know what tag it is at apply time, but the ReportToDB subclassed mover does, this TrajectoryMapFeatures reporter is set up to query this variable to get the current cycle count, which should be up to date because the original apply() call is made to the TrajectoryMapFeatures mover. This variable being up-to-date and meaningful depends on it being set by the TrajectoryMapFeatures Mover (or an unimplemented at the time of this writing mover)

Referenced by get_current_cycle(), report_features(), and set_current_cycle().

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

src/protocols/features/TrajectoryMapFeatures.hh
src/protocols/features/TrajectoryMapFeatures.cc

Public Member Functions

Private Attributes

Additional Inherited Members

Constructor & Destructor Documentation

Member Function Documentation

Member Data Documentation