core::import_pose::pose_stream::SilentFilePoseInputStream Class Reference

#include <SilentFilePoseInputStream.hh>

Inheritance diagram for core::import_pose::pose_stream::SilentFilePoseInputStream:

Public Member Functions
	SilentFilePoseInputStream ()
	SilentFilePoseInputStream (utility::vector1< FileName > const &fns)
	SilentFilePoseInputStream (std::string const &fn)
	SilentFilePoseInputStream (utility::vector1< FileName > const &fns, bool order_by_energy)
	SilentFilePoseInputStream (utility::vector1< FileName > const &fns, core::Real energy_cut)
	SilentFilePoseInputStream (utility::vector1< FileName > const &fns, utility::vector1< string > const &input_tags)
	SilentFilePoseInputStream (utility::vector1< FileName > const &fns, utility::vector1< string > const &input_tags, core::Real energy_cut)
void	set_silent_file_data (core::io::silent::SilentFileDataOP &sfd)
core::io::silent::SilentFileDataOP	silent_file_data ()
	Access the SilentFileData owning pointer directly. More...
void	set_record_source (bool const &setting)
	~SilentFilePoseInputStream () override
void	renumber_decoys (bool const setting)
void	tags (utility::vector1< string > const &tags)
void	filenames (utility::vector1< FileName > const &filenames)
core::Real	energy_cut () const
bool	renumber_decoys () const
utility::vector1< string >	tags () const
utility::vector1< FileName >	filenames () const
void	set_order_by_energy (bool const &setting)
bool	has_another_pose () override
void	reset () override
void	fill_pose (core::pose::Pose &pose, core::chemical::ResidueTypeSet const &residue_set, bool const metapatches=true) override
void	fill_pose (core::pose::Pose &, bool const metapatches=true) override
core::io::silent::SilentStructOP	next_struct ()
Public Member Functions inherited from core::import_pose::pose_stream::PoseInputStream
	PoseInputStream ()
	~PoseInputStream () override
virtual utility::vector1 < core::pose::PoseOP >	get_all_poses (core::chemical::ResidueTypeSet const &residue_set)
void	preprocess_pose (core::pose::Pose &pose)
	Perform common operations on a Pose dependent on command-line options before finishing fill_pose. This includes optimizing hydrogens, adding constraints, and finding disulfides. This should be called in the fill_pose method of derived classes. More...

Private Types
typedef std::string	string
typedef utility::file::FileName	FileName

Private Member Functions
void	read_all_files_ ()

Private Attributes
utility::vector1< string >	tags_
utility::vector1< FileName >	filenames_
core::io::silent::SilentFileDataOP	sfd_
core::io::silent::SilentFileData::iterator	current_position_
bool	renumber_decoys_
core::Real	energy_cut_
bool	order_by_energy_
bool	record_source_

Member Typedef Documentation

typedef utility::file::FileName core::import_pose::pose_stream::SilentFilePoseInputStream::FileName

private

typedef std::string core::import_pose::pose_stream::SilentFilePoseInputStream::string

private

Constructor & Destructor Documentation

core::import_pose::pose_stream::SilentFilePoseInputStream::SilentFilePoseInputStream

(

)

References sfd_.

core::import_pose::pose_stream::SilentFilePoseInputStream::SilentFilePoseInputStream

(

utility::vector1< FileName > const &

fns

)

References filenames(), and sfd_.

core::import_pose::pose_stream::SilentFilePoseInputStream::SilentFilePoseInputStream

(

std::string const &

fn

)

References filenames(), and sfd_.

core::import_pose::pose_stream::SilentFilePoseInputStream::SilentFilePoseInputStream	(	utility::vector1< FileName > const &	fns,
		bool	order_by_energy
	)

References filenames(), and sfd_.

core::import_pose::pose_stream::SilentFilePoseInputStream::SilentFilePoseInputStream	(	utility::vector1< FileName > const &	fns,
		core::Real	energy_cut
	)

References filenames(), and sfd_.

core::import_pose::pose_stream::SilentFilePoseInputStream::SilentFilePoseInputStream	(	utility::vector1< FileName > const &	fns,
		utility::vector1< string > const &	input_tags
	)

References filenames(), sfd_, and tags().

core::import_pose::pose_stream::SilentFilePoseInputStream::SilentFilePoseInputStream	(	utility::vector1< FileName > const &	fns,
		utility::vector1< string > const &	input_tags,
		core::Real	energy_cut
	)

References filenames(), sfd_, and tags().

core::import_pose::pose_stream::SilentFilePoseInputStream::~SilentFilePoseInputStream ( )

inlineoverride

Member Function Documentation

core::Real core::import_pose::pose_stream::SilentFilePoseInputStream::energy_cut

(

)

const

References energy_cut_.

Referenced by read_all_files_().

void core::import_pose::pose_stream::SilentFilePoseInputStream::filenames

(

utility::vector1< FileName > const &

filenames

)

References current_position_, filenames(), filenames_, read_all_files_(), and sfd_.

utility::vector1< FileName > core::import_pose::pose_stream::SilentFilePoseInputStream::filenames

(

)

const

References filenames_.

Referenced by filenames(), and SilentFilePoseInputStream().

void core::import_pose::pose_stream::SilentFilePoseInputStream::fill_pose ( core::pose::Pose &  pose, core::chemical::ResidueTypeSet const &  residue_set, bool const  metapatches = true  )

overridevirtual

Implements core::import_pose::pose_stream::PoseInputStream.

References current_position_, core::pose::Pose::data(), core::pack::interaction_graph::debug, has_another_pose(), core::pose::datacache::CacheableDataType::JOBDIST_OUTPUT_TAG, core::import_pose::pose_stream::PoseInputStream::preprocess_pose(), core::pose::setPoseExtraScore(), and core::import_pose::pose_stream::tr().

void core::import_pose::pose_stream::SilentFilePoseInputStream::fill_pose ( core::pose::Pose &  pose, bool const  metapatches = true  )

overridevirtual

Implements core::import_pose::pose_stream::PoseInputStream.

References current_position_, core::pose::Pose::data(), core::pack::interaction_graph::debug, has_another_pose(), core::pose::datacache::CacheableDataType::JOBDIST_OUTPUT_TAG, core::import_pose::pose_stream::PoseInputStream::preprocess_pose(), core::pose::setPoseExtraScore(), and core::import_pose::pose_stream::tr().

bool core::import_pose::pose_stream::SilentFilePoseInputStream::has_another_pose ( )

overridevirtual

Implements core::import_pose::pose_stream::PoseInputStream.

References current_position_, and sfd_.

Referenced by fill_pose(), and next_struct().

core::io::silent::SilentStructOP core::import_pose::pose_stream::SilentFilePoseInputStream::next_struct

(

)

References current_position_, and has_another_pose().

void core::import_pose::pose_stream::SilentFilePoseInputStream::read_all_files_ ( )

private

References energy_cut(), filenames_, order_by_energy_, record_source_, renumber_decoys(), sfd_, tags_, and core::import_pose::pose_stream::tr().

Referenced by filenames().

void core::import_pose::pose_stream::SilentFilePoseInputStream::renumber_decoys

(

bool const

setting

)

References renumber_decoys_.

bool core::import_pose::pose_stream::SilentFilePoseInputStream::renumber_decoys

(

)

const

References renumber_decoys_.

Referenced by read_all_files_(), and set_silent_file_data().

void core::import_pose::pose_stream::SilentFilePoseInputStream::reset ( )

overridevirtual

Implements core::import_pose::pose_stream::PoseInputStream.

References current_position_, and sfd_.

void core::import_pose::pose_stream::SilentFilePoseInputStream::set_order_by_energy

(

bool const &

setting

)

References current_position_, order_by_energy_, and sfd_.

void core::import_pose::pose_stream::SilentFilePoseInputStream::set_record_source

(

bool const &

setting

)

References record_source_.

void core::import_pose::pose_stream::SilentFilePoseInputStream::set_silent_file_data

(

core::io::silent::SilentFileDataOP &

sfd

)

References current_position_, filenames_, order_by_energy_, renumber_decoys(), sfd_, tags_, and core::import_pose::pose_stream::tr().

core::io::silent::SilentFileDataOP core::import_pose::pose_stream::SilentFilePoseInputStream::silent_file_data ( )

inline

Access the SilentFileData owning pointer directly.

References sfd_.

void core::import_pose::pose_stream::SilentFilePoseInputStream::tags

(

utility::vector1< string > const &

tags

)

References tags(), and tags_.

utility::vector1< std::string > core::import_pose::pose_stream::SilentFilePoseInputStream::tags

(

)

const

References tags_.

Referenced by SilentFilePoseInputStream(), and tags().

Member Data Documentation

core::io::silent::SilentFileData::iterator core::import_pose::pose_stream::SilentFilePoseInputStream::current_position_

private

Referenced by filenames(), fill_pose(), has_another_pose(), next_struct(), reset(), set_order_by_energy(), and set_silent_file_data().

core::Real core::import_pose::pose_stream::SilentFilePoseInputStream::energy_cut_

private

Referenced by energy_cut().

utility::vector1< FileName > core::import_pose::pose_stream::SilentFilePoseInputStream::filenames_

private

Referenced by filenames(), read_all_files_(), and set_silent_file_data().

bool core::import_pose::pose_stream::SilentFilePoseInputStream::order_by_energy_

private

Referenced by read_all_files_(), set_order_by_energy(), and set_silent_file_data().

bool core::import_pose::pose_stream::SilentFilePoseInputStream::record_source_

private

Referenced by read_all_files_(), and set_record_source().

bool core::import_pose::pose_stream::SilentFilePoseInputStream::renumber_decoys_

private

Referenced by renumber_decoys().

core::io::silent::SilentFileDataOP core::import_pose::pose_stream::SilentFilePoseInputStream::sfd_

private

Referenced by filenames(), has_another_pose(), read_all_files_(), reset(), set_order_by_energy(), set_silent_file_data(), silent_file_data(), and SilentFilePoseInputStream().

utility::vector1< string > core::import_pose::pose_stream::SilentFilePoseInputStream::tags_

private

Referenced by read_all_files_(), set_silent_file_data(), and tags().

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

• src/core/import_pose/pose_stream/SilentFilePoseInputStream.hh
• src/core/import_pose/pose_stream/SilentFilePoseInputStream.cc