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protocols::denovo_design::components::ExtendedPoseBuilder Class Reference

#include <ExtendedPoseBuilder.hh>

Inheritance diagram for protocols::denovo_design::components::ExtendedPoseBuilder:
Inheritance graph
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Public Types

typedef utility::vector1
< core::Size
Resids
 

Public Member Functions

 ExtendedPoseBuilder ()
 
 ~ExtendedPoseBuilder () override
 
core::pose::PoseOP apply (StructureData const &sd) const override
 
PoseBuilderOP clone () const override
 
- Public Member Functions inherited from protocols::denovo_design::components::PoseBuilder
 PoseBuilder ()
 
bool debug () const
 Returns whether or not to output debugging PDBs will be outputted which could be useful for fixing problems (true=output extra PDBs; false=don't output extra PDBs) More...
 
void set_debug (bool const debug)
 Sets whether or not to output debugging PDBs will be outputted which could be useful for fixing problems (true=output extra PDBs; false=don't output extra PDBs) More...
 
bool write_debug_pdb (core::pose::Pose const &pose, std::string const &filename) const
 Writes a debugging pdb (as described above). Does nothing if "debug_" is false and only outputs a PDB if "debug_" is true. More...
 

Protected Member Functions

core::pose::PoseOP create_template_pose (StructureData const &sd, SegmentNames const &template_segments) const
 Creates a pose that contains only the template segments. More...
 
void extend_pose (core::pose::Pose &pose, StructureData const &sd, SegmentNames const &template_segments) const
 Extends a pose containing only template segments so that it also includes de novo segments. More...
 

Private Member Functions

SegmentNames find_template_segments (StructureData const &sd) const
 Finds the segments that have template conformations. More...
 
Resids calc_chain_endings (StructureData const &sd) const
 

Member Typedef Documentation

Constructor & Destructor Documentation

protocols::denovo_design::components::ExtendedPoseBuilder::ExtendedPoseBuilder ( )
protocols::denovo_design::components::ExtendedPoseBuilder::~ExtendedPoseBuilder ( )
overridedefault

Member Function Documentation

core::pose::PoseOP protocols::denovo_design::components::ExtendedPoseBuilder::apply ( StructureData const &  sd) const
overridevirtual
ExtendedPoseBuilder::Resids protocols::denovo_design::components::ExtendedPoseBuilder::calc_chain_endings ( StructureData const &  sd) const
private
PoseBuilderOP protocols::denovo_design::components::ExtendedPoseBuilder::clone ( ) const
overridevirtual
core::pose::PoseOP protocols::denovo_design::components::ExtendedPoseBuilder::create_template_pose ( StructureData const &  sd,
SegmentNames const &  template_segments 
) const
protected
void protocols::denovo_design::components::ExtendedPoseBuilder::extend_pose ( core::pose::Pose pose,
StructureData const &  sd,
SegmentNames const &  template_segments 
) const
protected

Extends a pose containing only template segments so that it also includes de novo segments.

References protocols::denovo_design::add_cutpoints(), protocols::denovo_design::components::add_terminus_variants(), protocols::denovo_design::components::append_new_residues(), calc_chain_endings(), core::conformation::Conformation::chains_from_termini(), core::pose::Pose::conformation(), protocols::denovo_design::components::create_debug_filename(), protocols::denovo_design::components::Segment::cutpoint(), protocols::denovo_design::components::Segment::elem_length(), protocols::denovo_design::components::Segment::has_free_upper_terminus(), protocols::denovo_design::components::Segment::length(), protocols::denovo_design::components::Segment::lower_dihedrals(), protocols::denovo_design::components::Segment::n_residues_after_cutpoint(), protocols::denovo_design::components::Segment::n_residues_before_cutpoint(), protocols::denovo_design::components::prepend_new_residues(), core::pose::remove_lower_terminus_type_from_pose_residue(), core::pose::remove_upper_terminus_type_from_pose_residue(), protocols::denovo_design::components::StructureData::segment(), protocols::denovo_design::components::StructureData::segments_begin(), protocols::denovo_design::components::StructureData::segments_end(), core::pose::Pose::size(), protocols::TR(), protocols::denovo_design::components::Segment::upper_dihedrals(), and protocols::denovo_design::components::PoseBuilder::write_debug_pdb().

Referenced by apply().

SegmentNames protocols::denovo_design::components::ExtendedPoseBuilder::find_template_segments ( StructureData const &  sd) const
private

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