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residue_io.cc File Reference
#include <core/chemical/residue_io.hh>
#include <core/chemical/ResidueConnection.hh>
#include <core/chemical/ResidueType.hh>
#include <core/chemical/ResidueSupport.hh>
#include <core/chemical/Atom.hh>
#include <core/chemical/AtomType.hh>
#include <core/chemical/MMAtomType.hh>
#include <core/id/AtomID.hh>
#include <core/kinematics/Stub.hh>
#include <basic/Tracer.hh>
#include <ObjexxFCL/string.functions.hh>
#include <utility/file/FileName.hh>
#include <utility/file/file_sys_util.hh>
#include <numeric/conversions.hh>
#include <platform/types.hh>
#include <core/id/DOF_ID.fwd.hh>
#include <core/kinematics/Jump.hh>
#include <utility/Bound.hh>
#include <utility/vector1.hh>
#include <utility/io/izstream.hh>
#include <utility/keys/AutoKey.hh>
#include <utility/keys/SmallKeyVector.hh>
#include <numeric/xyz.functions.hh>
#include <ObjexxFCL/Dimension.hh>
#include <ObjexxFCL/DynamicIndexRange.hh>
#include <ObjexxFCL/FArray.hh>
#include <ObjexxFCL/FArray2D.hh>
#include <basic/options/keys/corrections.OptionKeys.gen.hh>
#include <basic/options/keys/in.OptionKeys.gen.hh>
#include <basic/options/option.hh>
#include <boost/foreach.hpp>

Namespaces

 ObjexxFCL
 C++ headers.
 
 core
 A class for defining atom parameters, known as atom_types.
 
 core::chemical
 

Constant Groups

 ObjexxFCL
 C++ headers.
 
 core
 A class for defining atom parameters, known as atom_types.
 
 core::chemical
 

Macros

#define foreach   BOOST_FOREACH
 

Functions

static basic::Tracer core::chemical::tr ("core.chemical")
 
id::AtomID core::chemical::atom_id_from_icoor_line (std::string const name, ResidueType const &rsd)
 helper fxn More...
 
ResidueTypeOP core::chemical::read_topology_file (std::string const &filename, chemical::AtomTypeSetCAP atom_types, chemical::ElementSetCAP elements, chemical::MMAtomTypeSetCAP mm_atom_types, chemical::orbitals::OrbitalTypeSetCAP orbital_atom_types,chemical::ResidueTypeSetCAP rsd_type_set)
 virtual constructor for ResidueType objects More...
 
ResidueTypeOP core::chemical::read_topology_file (utility::io::izstream &data, chemical::AtomTypeSetCAP atom_types, chemical::ElementSetCAP elements, chemical::MMAtomTypeSetCAP mm_atom_types, chemical::orbitals::OrbitalTypeSetCAP orbital_atom_types, chemical::ResidueTypeSetCAP rsd_type_set)
 
void core::chemical::write_topology_file (ResidueType const &rsd)
 function to write out a topology file given a residue type, can be used to More...
 

Detailed Description

Author
Phil Bradley

Macro Definition Documentation

#define foreach   BOOST_FOREACH