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protocols::splice::SpliceManager Class Reference

#include <SpliceManager.hh>

Inheritance diagram for protocols::splice::SpliceManager:
Inheritance graph
[legend]

Public Member Functions

 SpliceManager ()
 
 ~SpliceManager () override
 
void fold_tree (core::pose::Pose &pose, utility::vector1< std::array< int, 3 >> positions) const
 set the fold tree around start/stop/cut sites. More...
 
void set_BB_dofs (core::pose::Pose &pose)
 
core::sequence::SequenceProfileOP generate_sequence_profile (core::pose::Pose &pose)
 
void generate_profile_from_seq (std::map< std::string, std::string > segment_seq_map, std::string segmentName, std::string sourcename, SpliceSegmentOP SpliceSegment)
 
void add_sequence_constraints (core::pose::Pose &pose)
 
void rb_adjust_template (core::pose::Pose const &pose) const
 
void adjust_stem_positions_by_template (core::pose::Pose const &pose)
 
core::Size template_from_res ()
 
void template_from_res (core::Size const i)
 
core::Size template_to_res ()
 
void template_to_res (core::Size const i)
 
core::Size pose_from_res ()
 
void pose_from_res (core::Size const i)
 
core::Size pose_to_res ()
 
void pose_to_res (core::Size const i)
 
void chain_num (core::Size const i)
 
core::Size chain_num () const
 
void use_sequence_profiles (bool const b)
 
core::Size use_sequence_profiles ()
 
void add_sequence_constraints_only (bool const b)
 
bool add_sequence_constraints_only ()
 
void segment_type (std::string const &s)
 
std::string segment_type ()
 
void source_pdb_name (std::string const &s)
 
std::string source_pdb_name ()
 
void pdb_segments (std::map< std::string, std::string > const &m)
 
std::map< std::string,
std::string > & 
pdb_segments ()
 
void segment_names_ordered (utility::vector1< std::string > SegNameOrder)
 
utility::vector1< std::string > & segment_names_ordered ()
 
std::map< std::string,
SpliceSegmentOP > & 
splice_segments ()
 
void splice_segments (std::map< std::string, SpliceSegmentOP > const &m)
 
core::pose::PoseOP template_pose ()
 
void template_pose (core::pose::PoseOP const pose)
 
void rb_sensitive (bool const b)
 
bool rb_sensitive () const
 
void dofs (ResidueBBDofs const &d)
 
ResidueBBDofsdofs ()
 
core::Real profile_weight_away_from_interface () const
 
void profile_weight_away_from_interface (core::Real const p)
 
void scorefxn (core::scoring::ScoreFunctionOP sf)
 
core::scoring::ScoreFunctionOP scorefxn () const
 
void cut_site (core::Size const c)
 
core::Size cut_site ()
 
void residue_diff (core::Size const c)
 
int residue_diff ()
 
std::string tail_seg ()
 
void tail_seg (std::string const &s)
 
core::kinematics::MoveMapOP mm ()
 
void mm (core::kinematics::MoveMapOP const m)
 
void update_pose_stem_positions ()
 
void check_sequence_profile (core::pose::Pose &pose, core::id::SequenceMappingOP smap, core::sequence::SequenceProfileOP seqprof)
 
void parse_tags (TagCOP const tag, basic::datacache::DataMap &data)
 
core::pack::task::TaskFactoryOP task_factory () const
 
void task_factory (core::pack::task::TaskFactoryOP tf)
 
void dbase_file_name (std::string const &s)
 
std::string dbase_file_name () const
 
void design_shell (core::Real const c)
 
void repack_shell (core::Real const c)
 
core::Real design_shell () const
 
core::Real repack_shell () const
 
std::string template_file () const
 
void template_file (std::string const &s)
 
bool thread_original_sequence () const
 
void thread_original_sequence (bool const s)
 
bool debug () const
 
void debug (bool const s)
 
std::string mover_name () const
 
void mover_name (std::string const &s)
 
void modify_pdb_segments_with_current_segment (std::string const &pdb_name)
 
void chainbreak_check (core::pose::Pose const &pose, core::Real const tolerance, bool fail_retry_if_found, bool crash_if_found)
 
core::Size allowed_cuts () const
 
void allowed_cuts (core::Size const s)
 
void add_dihedral_constraints (core::pose::Pose &pose, core::pose::Pose const &source_pose, core::Size nearest_to_from, core::Size nearest_to_to)
 
void add_coordinate_constraints (core::pose::Pose &pose, core::pose::Pose const &source_pose, core::Size nearest_to_from, core::Size nearest_to_to, core::Size anchor, std::string atom_type="CA", core::pack::task::PackerTaskOP task=nullptr)
 
void parse_segments (utility::vector1< TagCOP > const &sub_tags, TagCOP const tag, basic::datacache::DataMap &data)
 
core::Size anchor_res ()
 
void anchor_res (core::Size const c)
 

Public Attributes

bool adjust_stem_positions_by_template_
 

Private Attributes

core::Size template_from_res_
 
core::Size template_to_res_
 
core::Size pose_from_res_
 
core::Size pose_to_res_
 
std::string tail_seg_
 
int residue_diff_
 
core::Size chain_num_
 
ResidueBBDofs dofs_
 
bool use_sequence_profiles_
 
std::string segment_type_
 
bool add_sequence_constraints_only_
 
std::string source_pdb_name_
 
std::map< std::string,
std::string > 
pdb_segments_
 
std::map< std::string,
SpliceSegmentOP
splice_segments_
 
core::Real profile_weight_away_from_interface_
 
core::scoring::ScoreFunctionOP scorefxn_
 
utility::vector1< std::string > segment_names_ordered_
 
core::pose::PoseOP template_pose_
 
bool rb_sensitive_
 
core::Size cut_site_
 
core::kinematics::MoveMapOP mm_
 
core::pack::task::TaskFactoryOP task_factory_
 
std::string dbase_file_name_
 
core::Real design_shell_
 
core::Real repack_shell_
 
std::string mover_name_
 
bool debug_
 
std::string template_file_
 
bool thread_original_sequence_
 
core::Size allowed_cuts_
 
core::Size anchor_res_
 

Constructor & Destructor Documentation

protocols::splice::SpliceManager::SpliceManager ( )
protocols::splice::SpliceManager::~SpliceManager ( )
override

Member Function Documentation

void protocols::splice::SpliceManager::add_coordinate_constraints ( core::pose::Pose pose,
core::pose::Pose const &  source_pose,
core::Size  nearest_to_from,
core::Size  nearest_to_to,
core::Size  anchor,
std::string  atom_type = "CA",
core::pack::task::PackerTaskOP  task = nullptr 
)
void protocols::splice::SpliceManager::add_dihedral_constraints ( core::pose::Pose pose,
core::pose::Pose const &  source_pose,
core::Size  nearest_to_from,
core::Size  nearest_to_to 
)
void protocols::splice::SpliceManager::add_sequence_constraints ( core::pose::Pose pose)
void protocols::splice::SpliceManager::add_sequence_constraints_only ( bool const  b)
inline
bool protocols::splice::SpliceManager::add_sequence_constraints_only ( )
inline
void protocols::splice::SpliceManager::adjust_stem_positions_by_template ( core::pose::Pose const &  pose)
core::Size protocols::splice::SpliceManager::allowed_cuts ( ) const
inline
void protocols::splice::SpliceManager::allowed_cuts ( core::Size const  s)
inline

References allowed_cuts_.

core::Size protocols::splice::SpliceManager::anchor_res ( )
inline
void protocols::splice::SpliceManager::anchor_res ( core::Size const  c)
inline
void protocols::splice::SpliceManager::chain_num ( core::Size const  i)
inline

References chain_num_.

core::Size protocols::splice::SpliceManager::chain_num ( ) const
inline
void protocols::splice::SpliceManager::chainbreak_check ( core::pose::Pose const &  pose,
core::Real const  tolerance,
bool  fail_retry_if_found,
bool  crash_if_found 
)
void protocols::splice::SpliceManager::check_sequence_profile ( core::pose::Pose pose,
core::id::SequenceMappingOP  smap,
core::sequence::SequenceProfileOP  seqprof 
)
void protocols::splice::SpliceManager::cut_site ( core::Size const  c)
inline
core::Size protocols::splice::SpliceManager::cut_site ( )
inline

References cut_site_.

void protocols::splice::SpliceManager::dbase_file_name ( std::string const &  s)
inline
std::string protocols::splice::SpliceManager::dbase_file_name ( ) const
inline

References dbase_file_name_.

Referenced by parse_tags().

bool protocols::splice::SpliceManager::debug ( ) const
inline
void protocols::splice::SpliceManager::debug ( bool const  s)
inline

References debug_.

void protocols::splice::SpliceManager::design_shell ( core::Real const  c)
inline
core::Real protocols::splice::SpliceManager::design_shell ( ) const
inline

References design_shell_.

Referenced by parse_tags().

void protocols::splice::SpliceManager::dofs ( ResidueBBDofs const &  d)
inline
ResidueBBDofs& protocols::splice::SpliceManager::dofs ( )
inline

References dofs_.

Referenced by set_BB_dofs().

void protocols::splice::SpliceManager::fold_tree ( core::pose::Pose pose,
utility::vector1< std::array< int, 3 >>  positions 
) const
void protocols::splice::SpliceManager::generate_profile_from_seq ( std::map< std::string, std::string >  segment_seq_map,
std::string  segmentName,
std::string  sourcename,
SpliceSegmentOP  SpliceSegment 
)
core::sequence::SequenceProfileOP protocols::splice::SpliceManager::generate_sequence_profile ( core::pose::Pose pose)
core::kinematics::MoveMapOP protocols::splice::SpliceManager::mm ( )
inline
void protocols::splice::SpliceManager::mm ( core::kinematics::MoveMapOP const  m)
inline

References mm_.

void protocols::splice::SpliceManager::modify_pdb_segments_with_current_segment ( std::string const &  pdb_name)
std::string protocols::splice::SpliceManager::mover_name ( ) const
inline
void protocols::splice::SpliceManager::mover_name ( std::string const &  s)
inline

References mover_name_.

void protocols::splice::SpliceManager::parse_segments ( utility::vector1< TagCOP > const &  sub_tags,
TagCOP const  tag,
basic::datacache::DataMap &  data 
)
void protocols::splice::SpliceManager::parse_tags ( TagCOP const  tag,
basic::datacache::DataMap &  data 
)
void protocols::splice::SpliceManager::pdb_segments ( std::map< std::string, std::string > const &  m)
inline
std::map< std::string, std::string >& protocols::splice::SpliceManager::pdb_segments ( )
inline
core::Size protocols::splice::SpliceManager::pose_from_res ( )
inline

References pose_from_res_.

Referenced by adjust_stem_positions_by_template(), protocols::splice::SpliceOutAntibody::apply(), protocols::splice::SpliceIn::apply(), protocols::splice::SpliceInTail::apply(), protocols::splice::SpliceOut::apply(), protocols::splice::SpliceOutAntibody::assign_from_res_to_res(), protocols::splice::SpliceIn::assign_from_res_to_res(), protocols::splice::SpliceInTail::assign_from_res_to_res(), protocols::splice::SpliceInAntibody::assign_from_res_to_res(), protocols::splice::SpliceOutTail::build_ideal_segment(), protocols::splice::SpliceInTail::build_ideal_segment(), protocols::splice::SpliceIn::build_ideal_segment(), protocols::splice::SpliceOut::build_ideal_segment(), protocols::splice::SpliceOut::ccd_mover(), protocols::splice::SpliceIn::find_dbase_entry(), protocols::splice::SpliceInTail::find_dbase_entry(), protocols::splice::SpliceOut::place_cut_site_in_segment(), protocols::splice::SpliceOut::retrieve_values(), protocols::splice::SpliceOut::save_values(), protocols::splice::SpliceOutTail::set_anchor_res(), protocols::splice::SpliceInTail::set_anchor_res(), protocols::splice::SpliceIn::set_anchor_res(), protocols::splice::SpliceOut::set_anchor_res(), set_BB_dofs(), protocols::splice::SpliceInTail::set_fold_tree_nodes(), protocols::splice::SpliceOutTail::set_fold_tree_nodes(), protocols::splice::SpliceIn::set_fold_tree_nodes(), protocols::splice::SpliceOut::set_fold_tree_nodes(), protocols::splice::SpliceInTail::set_loop_length_change(), protocols::splice::SpliceOutTail::set_loop_length_change(), protocols::splice::SpliceIn::set_loop_length_change(), protocols::splice::SpliceOut::set_loop_length_change(), protocols::splice::SpliceOut::SpliceOutRMSDFilter(), protocols::splice::SpliceOutTail::write_database_to_file(), and protocols::splice::SpliceOut::write_database_to_file().

void protocols::splice::SpliceManager::pose_from_res ( core::Size const  i)
inline

References pose_from_res_.

core::Size protocols::splice::SpliceManager::pose_to_res ( )
inline

References pose_to_res_.

Referenced by adjust_stem_positions_by_template(), protocols::splice::SpliceOutAntibody::apply(), protocols::splice::SpliceInAntibody::apply(), protocols::splice::SpliceIn::apply(), protocols::splice::SpliceInTail::apply(), protocols::splice::SpliceOut::apply(), protocols::splice::SpliceOutAntibody::assign_from_res_to_res(), protocols::splice::SpliceIn::assign_from_res_to_res(), protocols::splice::SpliceInTail::assign_from_res_to_res(), protocols::splice::SpliceInAntibody::assign_from_res_to_res(), protocols::splice::SpliceOutTail::build_ideal_segment(), protocols::splice::SpliceInTail::build_ideal_segment(), protocols::splice::SpliceIn::build_ideal_segment(), protocols::splice::SpliceOut::build_ideal_segment(), protocols::splice::SpliceOut::ccd_mover(), protocols::splice::SpliceIn::find_dbase_entry(), protocols::splice::SpliceInTail::find_dbase_entry(), protocols::splice::SpliceOut::place_cut_site_in_segment(), protocols::splice::SpliceOut::retrieve_values(), protocols::splice::SpliceOut::save_values(), protocols::splice::SpliceOutTail::set_anchor_res(), protocols::splice::SpliceInTail::set_anchor_res(), protocols::splice::SpliceInTail::set_fold_tree_nodes(), protocols::splice::SpliceOutTail::set_fold_tree_nodes(), protocols::splice::SpliceIn::set_fold_tree_nodes(), protocols::splice::SpliceOut::set_fold_tree_nodes(), protocols::splice::SpliceInTail::set_loop_length_change(), protocols::splice::SpliceOutTail::set_loop_length_change(), update_pose_stem_positions(), protocols::splice::SpliceOutTail::write_database_to_file(), and protocols::splice::SpliceOut::write_database_to_file().

void protocols::splice::SpliceManager::pose_to_res ( core::Size const  i)
inline

References pose_to_res_.

core::Real protocols::splice::SpliceManager::profile_weight_away_from_interface ( ) const
inline
void protocols::splice::SpliceManager::profile_weight_away_from_interface ( core::Real const  p)
inline
void protocols::splice::SpliceManager::rb_adjust_template ( core::pose::Pose const &  pose) const
void protocols::splice::SpliceManager::rb_sensitive ( bool const  b)
inline
bool protocols::splice::SpliceManager::rb_sensitive ( ) const
inline

References rb_sensitive_.

Referenced by parse_tags(), and rb_adjust_template().

void protocols::splice::SpliceManager::repack_shell ( core::Real const  c)
inline
core::Real protocols::splice::SpliceManager::repack_shell ( ) const
inline

References repack_shell_.

Referenced by parse_tags().

void protocols::splice::SpliceManager::residue_diff ( core::Size const  c)
inline
int protocols::splice::SpliceManager::residue_diff ( )
inline
void protocols::splice::SpliceManager::scorefxn ( core::scoring::ScoreFunctionOP  sf)
inline
core::scoring::ScoreFunctionOP protocols::splice::SpliceManager::scorefxn ( ) const
inline
void protocols::splice::SpliceManager::segment_names_ordered ( utility::vector1< std::string >  SegNameOrder)
inline
utility::vector1< std::string >& protocols::splice::SpliceManager::segment_names_ordered ( )
inline

References segment_names_ordered_.

Referenced by parse_segments().

void protocols::splice::SpliceManager::segment_type ( std::string const &  s)
inline

References segment_type_.

Referenced by protocols::splice::SpliceOutAntibody::adjust_n_ter_tail_length(), protocols::splice::SpliceInAntibody::adjust_n_ter_tail_length(), protocols::splice::SpliceOutAntibody::apply(), protocols::splice::SpliceInAntibody::apply(), protocols::splice::SpliceIn::apply(), protocols::splice::SpliceInTail::apply(), protocols::splice::SpliceOutAntibody::assign_from_res_to_res(), protocols::splice::SpliceInAntibody::assign_from_res_to_res(), protocols::splice::SpliceOutAntibody::build_ideal_segment(), protocols::splice::SpliceInAntibody::build_ideal_segment(), protocols::splice::SpliceInAntibody::find_dbase_entry(), protocols::splice::SpliceOut::find_non_active_site_cut_site(), protocols::splice::SpliceOutAntibody::name_for_filter(), protocols::splice::SpliceOutAntibody::parse_my_tag(), protocols::splice::SpliceInAntibody::parse_my_tag(), protocols::splice::SpliceOutAntibody::place_cut_site_in_segment(), protocols::splice::SpliceOutAntibody::set_anchor_res(), protocols::splice::SpliceInAntibody::set_anchor_res(), protocols::splice::SpliceOutAntibody::set_fold_tree_nodes(), protocols::splice::SpliceInAntibody::set_fold_tree_nodes(), protocols::splice::SpliceOutAntibody::set_loop_length_change(), protocols::splice::SpliceInAntibody::set_loop_length_change(), protocols::splice::SpliceOutAntibody::set_source_from_to_res(), protocols::splice::SpliceOutAntibody::superimpose_source_on_pose(), protocols::splice::SpliceOutAntibody::update_vl_vh_cut(), protocols::splice::SpliceInAntibody::update_vl_vh_cut(), and protocols::splice::SpliceOutAntibody::write_database_to_file().

std::string protocols::splice::SpliceManager::segment_type ( )
inline
void protocols::splice::SpliceManager::set_BB_dofs ( core::pose::Pose pose)
void protocols::splice::SpliceManager::source_pdb_name ( std::string const &  s)
inline
std::string protocols::splice::SpliceManager::source_pdb_name ( )
inline
std::map< std::string, SpliceSegmentOP >& protocols::splice::SpliceManager::splice_segments ( )
inline
void protocols::splice::SpliceManager::splice_segments ( std::map< std::string, SpliceSegmentOP > const &  m)
inline

References splice_segments_.

std::string protocols::splice::SpliceManager::tail_seg ( )
inline

References tail_seg_.

Referenced by protocols::splice::SpliceOutTail::abstract_parse_tag(), adjust_stem_positions_by_template(), protocols::splice::SpliceOutAntibody::apply(), protocols::splice::SpliceInAntibody::apply(), protocols::splice::SpliceInTail::apply(), protocols::splice::SpliceInAntibody::assign_from_res_to_res(), protocols::splice::SpliceOutTail::build_ideal_segment(), protocols::splice::SpliceOutAntibody::build_ideal_segment(), protocols::splice::SpliceInTail::build_ideal_segment(), protocols::splice::SpliceInAntibody::build_ideal_segment(), protocols::splice::SpliceInAntibody::find_dbase_entry(), protocols::splice::SpliceOutAntibody::name_for_filter(), protocols::splice::SpliceOutAntibody::parse_my_tag(), protocols::splice::SpliceOutTail::place_cut_site_in_segment(), protocols::splice::SpliceOutAntibody::place_cut_site_in_segment(), protocols::splice::SpliceOutTail::set_anchor_res(), protocols::splice::SpliceInTail::set_anchor_res(), protocols::splice::SpliceOutAntibody::set_anchor_res(), protocols::splice::SpliceInAntibody::set_anchor_res(), protocols::splice::SpliceOutAntibody::set_fold_tree_nodes(), protocols::splice::SpliceInTail::set_fold_tree_nodes(), protocols::splice::SpliceOutTail::set_fold_tree_nodes(), protocols::splice::SpliceInAntibody::set_fold_tree_nodes(), protocols::splice::SpliceInTail::set_loop_length_change(), protocols::splice::SpliceOutTail::set_loop_length_change(), protocols::splice::SpliceOutAntibody::set_loop_length_change(), protocols::splice::SpliceInAntibody::set_loop_length_change(), protocols::splice::SpliceOutTail::set_source_from_to_res(), protocols::splice::SpliceOutAntibody::set_source_from_to_res(), protocols::splice::SpliceOutAntibody::SpliceOutAntibody(), protocols::splice::SpliceOutAntibody::superimpose_source_on_pose(), protocols::splice::SpliceOutTail::superimpose_source_on_pose(), protocols::splice::SpliceOutTail::write_database_to_file(), and protocols::splice::SpliceOutAntibody::write_database_to_file().

void protocols::splice::SpliceManager::tail_seg ( std::string const &  s)
inline

References tail_seg_.

core::pack::task::TaskFactoryOP protocols::splice::SpliceManager::task_factory ( ) const
inline
void protocols::splice::SpliceManager::task_factory ( core::pack::task::TaskFactoryOP  tf)
inline

References task_factory_.

std::string protocols::splice::SpliceManager::template_file ( ) const
inline
void protocols::splice::SpliceManager::template_file ( std::string const &  s)
inline

References template_file_.

core::Size protocols::splice::SpliceManager::template_from_res ( )
inline
void protocols::splice::SpliceManager::template_from_res ( core::Size const  i)
inline

References template_from_res_.

core::pose::PoseOP protocols::splice::SpliceManager::template_pose ( )
inline
void protocols::splice::SpliceManager::template_pose ( core::pose::PoseOP const  pose)
inline

References template_pose_.

core::Size protocols::splice::SpliceManager::template_to_res ( )
inline
void protocols::splice::SpliceManager::template_to_res ( core::Size const  i)
inline

References template_to_res_.

bool protocols::splice::SpliceManager::thread_original_sequence ( ) const
inline

References thread_original_sequence_.

Referenced by parse_tags().

void protocols::splice::SpliceManager::thread_original_sequence ( bool const  s)
inline
void protocols::splice::SpliceManager::update_pose_stem_positions ( )
void protocols::splice::SpliceManager::use_sequence_profiles ( bool const  b)
inline
core::Size protocols::splice::SpliceManager::use_sequence_profiles ( )
inline

Member Data Documentation

bool protocols::splice::SpliceManager::add_sequence_constraints_only_
private
bool protocols::splice::SpliceManager::adjust_stem_positions_by_template_
core::Size protocols::splice::SpliceManager::allowed_cuts_
private

Referenced by allowed_cuts(), and chainbreak_check().

core::Size protocols::splice::SpliceManager::anchor_res_
private
core::Size protocols::splice::SpliceManager::chain_num_
private

Referenced by chain_num().

core::Size protocols::splice::SpliceManager::cut_site_
private

Referenced by cut_site().

std::string protocols::splice::SpliceManager::dbase_file_name_
private

Referenced by dbase_file_name().

bool protocols::splice::SpliceManager::debug_
private

Referenced by debug(), and parse_tags().

core::Real protocols::splice::SpliceManager::design_shell_
private

Referenced by design_shell().

ResidueBBDofs protocols::splice::SpliceManager::dofs_
private

Referenced by dofs(), and SpliceManager().

core::kinematics::MoveMapOP protocols::splice::SpliceManager::mm_
private

Referenced by mm().

std::string protocols::splice::SpliceManager::mover_name_
private

Referenced by mover_name(), and parse_tags().

std::map< std::string, std::string > protocols::splice::SpliceManager::pdb_segments_
private
core::Size protocols::splice::SpliceManager::pose_from_res_
private

Referenced by pose_from_res().

core::Size protocols::splice::SpliceManager::pose_to_res_
private

Referenced by pose_to_res().

core::Real protocols::splice::SpliceManager::profile_weight_away_from_interface_
private
bool protocols::splice::SpliceManager::rb_sensitive_
private

Referenced by rb_sensitive().

core::Real protocols::splice::SpliceManager::repack_shell_
private

Referenced by repack_shell().

int protocols::splice::SpliceManager::residue_diff_
private

Referenced by residue_diff().

core::scoring::ScoreFunctionOP protocols::splice::SpliceManager::scorefxn_
private

Referenced by scorefxn().

utility::vector1< std::string > protocols::splice::SpliceManager::segment_names_ordered_
private
std::string protocols::splice::SpliceManager::segment_type_
private

Referenced by segment_type().

std::string protocols::splice::SpliceManager::source_pdb_name_
private

Referenced by source_pdb_name().

std::map< std::string, SpliceSegmentOP > protocols::splice::SpliceManager::splice_segments_
private
std::string protocols::splice::SpliceManager::tail_seg_
private

Referenced by tail_seg().

core::pack::task::TaskFactoryOP protocols::splice::SpliceManager::task_factory_
private

Referenced by task_factory().

std::string protocols::splice::SpliceManager::template_file_
private

Referenced by parse_tags(), and template_file().

core::Size protocols::splice::SpliceManager::template_from_res_
private

Referenced by template_from_res().

core::pose::PoseOP protocols::splice::SpliceManager::template_pose_
private
core::Size protocols::splice::SpliceManager::template_to_res_
private

Referenced by template_to_res().

bool protocols::splice::SpliceManager::thread_original_sequence_
private
bool protocols::splice::SpliceManager::use_sequence_profiles_
private

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