core::kinematics::tree Namespace Reference

Classes
class	Atom
	Kinematics Atom interface class. More...
class	Atom_
	Kinematics Atom abstract base class. More...
class	BondedAtom
	an atom which are bonded to its parentt, derived from Atom_ More...
class	JumpAtom
	an atom who are connected to its parent via rigid-body transformation "Jump" More...

Typedefs
typedef utility::pointer::access_ptr < Atom >	AtomAP
typedef utility::pointer::access_ptr < Atom const >	AtomCAP
typedef utility::pointer::owning_ptr < Atom >	AtomOP
typedef utility::pointer::owning_ptr < Atom const >	AtomCOP
typedef utility::pointer::owning_ptr < BondedAtom >	BondedAtomOP
typedef utility::pointer::owning_ptr < BondedAtom const >	BondedAtomCOP
typedef utility::pointer::access_ptr < BondedAtom >	BondedAtomAP
typedef utility::pointer::access_ptr < BondedAtom const >	BondedAtomCAP
typedef utility::pointer::owning_ptr < JumpAtom >	JumpAtomOP
typedef utility::pointer::owning_ptr < JumpAtom const >	JumpAtomCOP
typedef utility::pointer::access_ptr < JumpAtom >	JumpAtomAP
typedef utility::pointer::access_ptr < JumpAtom const >	JumpAtomCAP

Functions
Length	distance (Atom const &atom1, Atom const &atom2)
	Distance between two Atoms. More...
Length	distance_squared (Atom const &atom1, Atom const &atom2)
	Distance squared between two Atoms. More...

Variables
static basic::Tracer	TR ("core.kinematics.tree.Atom_")
Jump	BOGUS_JUMP

Typedef Documentation

typedef utility::pointer::access_ptr< Atom > core::kinematics::tree::AtomAP

typedef utility::pointer::access_ptr< Atom const > core::kinematics::tree::AtomCAP

typedef utility::pointer::owning_ptr< Atom const > core::kinematics::tree::AtomCOP

typedef utility::pointer::owning_ptr< Atom > core::kinematics::tree::AtomOP

typedef utility::pointer::access_ptr< BondedAtom > core::kinematics::tree::BondedAtomAP

typedef utility::pointer::access_ptr< BondedAtom const > core::kinematics::tree::BondedAtomCAP

typedef utility::pointer::owning_ptr< BondedAtom const > core::kinematics::tree::BondedAtomCOP

typedef utility::pointer::owning_ptr< BondedAtom > core::kinematics::tree::BondedAtomOP

typedef utility::pointer::access_ptr< JumpAtom > core::kinematics::tree::JumpAtomAP

typedef utility::pointer::access_ptr< JumpAtom const > core::kinematics::tree::JumpAtomCAP

typedef utility::pointer::owning_ptr< JumpAtom const > core::kinematics::tree::JumpAtomCOP

typedef utility::pointer::owning_ptr< JumpAtom > core::kinematics::tree::JumpAtomOP

Function Documentation

Length core::kinematics::tree::distance ( Atom const &  atom1, Atom const &  atom2  )

inline

Distance between two Atoms.

References core::kinematics::tree::Atom::distance().

Length core::kinematics::tree::distance_squared ( Atom const &  atom1, Atom const &  atom2  )

inline

Distance squared between two Atoms.

References core::kinematics::tree::Atom::distance_squared().

Variable Documentation

Jump core::kinematics::tree::BOGUS_JUMP

Referenced by core::kinematics::tree::BondedAtom::jump().

basic::Tracer core::kinematics::tree::TR("core.kinematics.tree.Atom_")

static

Referenced by core::kinematics::tree::Atom_::show().