protocols::jd2::AtomTreeDiffJobInputter Class Reference

#include <AtomTreeDiffJobInputter.hh>

Inheritance diagram for protocols::jd2::AtomTreeDiffJobInputter:

Collaboration diagram for protocols::jd2::AtomTreeDiffJobInputter:

Public Member Functions
	AtomTreeDiffJobInputter ()
virtual	~AtomTreeDiffJobInputter ()
virtual void	pose_from_job (core::pose::Pose &pose, JobOP job)
	this function is responsible for filling the pose reference with the pose indicated by the job. The Job object (within its InnerJob) contains a PoseCOP. This function needs to either fill the pose reference from the InnerJob or, on first demand of a pose from that InnerJob, instantiate the pose, hand off a COP to the InnerJob, and fill the reference. This implementation uses pose_from_pdb More...
virtual void	fill_jobs (Jobs &jobs)
	this function determines what jobs exist from -in::file::silent and -in::file::tags. More...
virtual JobInputterInputSource::Enum	input_source () const
	Return the type of input source that the AtomTreeDiffJobInputter is currently using. More...
core::pose::PoseOPs const &	all_ref_poses () const
	Utility function to allow mutatable (!) access to the reference poses of the undelying AtomTreeDiff object. Use with caution. More...
Public Member Functions inherited from protocols::jd2::JobInputter
virtual	~JobInputter ()

Private Attributes
core::import_pose::atom_tree_diffs::AtomTreeDiff	atom_tree_diff_

Additional Inherited Members
Static Public Member Functions inherited from protocols::jd2::JobInputter
static std::string	job_inputter_input_source_to_string (JobInputterInputSource::Enum source)
	call this with input_source() to get the input source of a particular job inputter More...
Protected Member Functions inherited from protocols::jd2::JobInputter
void	load_pose_into_job (core::pose::Pose const &pose, JobOP job)
	this function modifies the InnerJob's pose. Access to that pose is via friendship. More...
void	load_pose_into_job (core::pose::PoseCOP pose, JobOP job)
	this function modifies the InnerJob's pose. Access to that pose is via friendship. More...
virtual core::Size	get_nstruct () const
	this code is here to restrict the use of inner_job_nonconst (this class is a friend class and can do it) More...

Detailed Description

This is the simplest implementation of JobInputter, which reads from -s/-l and AtomTree files.

Definition at line 36 of file AtomTreeDiffJobInputter.hh.

Constructor & Destructor Documentation

protocols::jd2::AtomTreeDiffJobInputter::AtomTreeDiffJobInputter

(

)

Definition at line 48 of file AtomTreeDiffJobInputter.cc.

References protocols::jd2::tr().

protocols::jd2::AtomTreeDiffJobInputter::~AtomTreeDiffJobInputter ( )

virtual

Definition at line 54 of file AtomTreeDiffJobInputter.cc.

Member Function Documentation

utility::vector1< core::pose::PoseOP > const & protocols::jd2::AtomTreeDiffJobInputter::all_ref_poses

(

)

const

Utility function to allow mutatable (!) access to the reference poses of the undelying AtomTreeDiff object. Use with caution.

This exists to allow setup on stored reference poses for properties that don't get saved/restored in PDB format, like covalent constraints for enzyme design.

Definition at line 174 of file AtomTreeDiffJobInputter.cc.

void protocols::jd2::AtomTreeDiffJobInputter::fill_jobs ( Jobs &  jobs)

virtual

this function determines what jobs exist from -in::file::silent and -in::file::tags.

this function determines what jobs exist -in:file:atom_tree_diff

Implements protocols::jd2::JobInputter.

Definition at line 95 of file AtomTreeDiffJobInputter.cc.

References protocols::jd2::tr().

JobInputterInputSource::Enum protocols::jd2::AtomTreeDiffJobInputter::input_source ( ) const

virtual

Return the type of input source that the AtomTreeDiffJobInputter is currently using.

Returns

Always ATOM_TREE_FILE.

Implements protocols::jd2::JobInputter.

Definition at line 164 of file AtomTreeDiffJobInputter.cc.

References protocols::jd2::JobInputterInputSource::ATOM_TREE_FILE.

void protocols::jd2::AtomTreeDiffJobInputter::pose_from_job ( core::pose::Pose &  pose, JobOP  job  )

virtual

this function is responsible for filling the pose reference with the pose indicated by the job. The Job object (within its InnerJob) contains a PoseCOP. This function needs to either fill the pose reference from the InnerJob or, on first demand of a pose from that InnerJob, instantiate the pose, hand off a COP to the InnerJob, and fill the reference. This implementation uses pose_from_pdb

This function will first see if the pose already exists in the Job. If not, it will read it into the pose reference, and hand a COP cloned from that pose to the Job. If the pose pre-exists it just copies the COP's pose into it.

Implements protocols::jd2::JobInputter.

Definition at line 60 of file AtomTreeDiffJobInputter.cc.

References core::pose::Pose::clear(), core::import_pose::pose_from_pdb(), and protocols::jd2::tr().

Member Data Documentation

core::import_pose::atom_tree_diffs::AtomTreeDiff protocols::jd2::AtomTreeDiffJobInputter::atom_tree_diff_

private

Definition at line 69 of file AtomTreeDiffJobInputter.hh.

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

• src/protocols/jd2/AtomTreeDiffJobInputter.hh
• src/protocols/jd2/AtomTreeDiffJobInputter.cc