util.hh File Reference

read jump-definition file setups fold tree an chainbreak variants loop code didn't work because fold-tree to complicated ( overlapping loops ) More...

#include <core/pose/Pose.fwd.hh>
#include <core/kinematics/FoldTree.hh>
#include <protocols/loops/loop_closure/ccd/SlidingWindowLoopClosure.fwd.hh>
#include <core/types.hh>
#include <core/fragment/JumpingFrame.fwd.hh>
#include <protocols/checkpoint/CheckPointer.fwd.hh>
#include <utility/vector1.hh>

Namespaces
	protocols
	The instance of Loops contained by AbrelaxApplication should be replaced by a LoopsOP.
	protocols::jumping

Functions
bool	protocols::jumping::remove_cut (core::Size cutpoint, core::pose::Pose &pose, core::kinematics::FoldTree const &final_fold_tree=core::kinematics::FoldTree())
bool	protocols::jumping::remove_cut (core::Size cutpoint, core::kinematics::FoldTree &fold_tree, core::kinematics::FoldTree const &final_fold_tree=core::kinematics::FoldTree())
void	protocols::jumping::close_chainbreaks (loops::loop_closure::ccd::SlidingWindowLoopClosureOP closure_protocol, Pose &open_pose, protocols::checkpoint::CheckPointer &checkpoint, const std::string &decoy_tag, core::kinematics::FoldTree const &final_fold_tree_in)
void	protocols::jumping::safe_secstruct (pose::Pose &pose)
void	protocols::jumping::get_pleating (pose::Pose const &pose, Size const pos1, Size const pos2, Size &orientation, Size &pleating)
void	protocols::jumping::get_pairing_geometry (pose::Pose const &pose, Size const res1, Size const res2, Real &orientation, Real &pleating1, Real &pleating2)
core::fragment::JumpingFrameOP	protocols::jumping::generate_empty_jump_frame (Size startpos, Size endpos, Size length)
core::fragment::JumpingFrameOP	protocols::jumping::generate_jump_frame (Size startpos, Size endpos, bool bWithTorsion)
void	protocols::jumping::assign_ss_dssp (core::pose::Pose &pose)
	Assign secondary structure using DSSP. More...

Detailed Description

read jump-definition file setups fold tree an chainbreak variants loop code didn't work because fold-tree to complicated ( overlapping loops )

Detailed:

Author

Oliver Lange