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protocols::stepwise::modeler::protein Namespace Reference

Namespaces

 checker
 
 loop_close
 

Classes

class  InputStreamWithResidueInfo
 
class  MainChainTorsionSet
 
class  StepWiseProteinBackboneSampler
 

Typedefs

typedef
utility::pointer::shared_ptr
< InputStreamWithResidueInfo
InputStreamWithResidueInfoOP
 
typedef
utility::pointer::shared_ptr
< InputStreamWithResidueInfo
const > 
InputStreamWithResidueInfoCOP
 
typedef utility::vector1
< MainChainTorsionSet
MainChainTorsionSetList
 
typedef std::map< core::Size,
core::Size
ResMap
 

Functions

import_pose::pose_stream::PoseInputStreamOP setup_pose_input_stream (utility::options::StringVectorOption const &option_s1, utility::options::StringVectorOption const &option_silent1, utility::options::StringVectorOption const &option_tags1)
 
void initialize_input_streams (utility::vector1< protocols::stepwise::modeler::protein::InputStreamWithResidueInfoOP > &input_streams)
 
void initialize_input_streams_with_residue_info (utility::vector1< InputStreamWithResidueInfoOP > &input_streams_with_residue_info, utility::vector1< std::string > const &pdb_tags, utility::vector1< std::string > const &silent_files_in, utility::vector1< core::Size > const &input_res, utility::vector1< core::Size > const &input_res2)
 
void setup_protein_backbone_atom_id_map (core::pose::Pose const &pose_1, core::pose::Pose const &pose_2, core::Size const base_res, core::Size const base_res2, core::id::AtomID_Map< core::id::AtomID > &atom_ID_map)
 
void figure_out_protein_modeling_info (pose::Pose const &pose, core::Size const moving_res, utility::vector1< core::Size > &moving_res_list)
 
utility::vector1< core::Sizeget_bridge_res (pose::Pose const &pose, utility::vector1< core::Size > const &moving_res_list)
 
utility::vector1< core::Sizejust_protein (utility::vector1< core::Size > const &res_list, pose::Pose const &pose)
 
bool contains_protein (core::pose::Pose const &pose, utility::vector1< core::Size > const &res_list)
 

Typedef Documentation

Function Documentation

bool protocols::stepwise::modeler::protein::contains_protein ( core::pose::Pose const &  pose,
utility::vector1< core::Size > const &  res_list 
)
void protocols::stepwise::modeler::protein::figure_out_protein_modeling_info ( pose::Pose const &  pose,
core::Size const  moving_res,
utility::vector1< core::Size > &  moving_res_list 
)
utility::vector1< core::Size > protocols::stepwise::modeler::protein::get_bridge_res ( pose::Pose const &  pose,
utility::vector1< core::Size > const &  moving_res_list 
)
void protocols::stepwise::modeler::protein::initialize_input_streams ( utility::vector1< protocols::stepwise::modeler::protein::InputStreamWithResidueInfoOP > &  input_streams)
void protocols::stepwise::modeler::protein::initialize_input_streams_with_residue_info ( utility::vector1< InputStreamWithResidueInfoOP > &  input_streams_with_residue_info,
utility::vector1< std::string > const &  pdb_tags,
utility::vector1< std::string > const &  silent_files_in,
utility::vector1< core::Size > const &  input_res,
utility::vector1< core::Size > const &  input_res2 
)
utility::vector1< core::Size > protocols::stepwise::modeler::protein::just_protein ( utility::vector1< core::Size > const &  res_list,
pose::Pose const &  pose 
)
core::import_pose::pose_stream::PoseInputStreamOP protocols::stepwise::modeler::protein::setup_pose_input_stream ( utility::options::StringVectorOption const &  option_s1,
utility::options::StringVectorOption const &  option_silent1,
utility::options::StringVectorOption const &  option_tags1 
)
void protocols::stepwise::modeler::protein::setup_protein_backbone_atom_id_map ( core::pose::Pose const &  pose_1,
core::pose::Pose const &  pose_2,
core::Size const  base_res,
core::Size const  base_res2,
core::id::AtomID_Map< core::id::AtomID > &  atom_ID_map 
)