residue_handle.hh

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//------------------------------------------------------------------------------
// This file is part of the OpenStructure project <www.openstructure.org>
//
// Copyright (C) 2008-2020 by the OpenStructure authors
//
// This library is free software; you can redistribute it and/or modify it under
// the terms of the GNU Lesser General Public License as published by the Free
// Software Foundation; either version 3.0 of the License, or (at your option)
// any later version.
// This library is distributed in the hope that it will be useful, but WITHOUT
// ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS
// FOR A PARTICULAR PURPOSE.  See the GNU Lesser General Public License for more
// details.
//
// You should have received a copy of the GNU Lesser General Public License
// along with this library; if not, write to the Free Software Foundation, Inc.,
// 51 Franklin Street, Fifth Floor, Boston, MA  02110-1301  USA
//------------------------------------------------------------------------------
#ifndef OST_RESIDUE_HANDLE_HU
#define OST_RESIDUE_HANDLE_HU
 
#include <ost/geom/vec3.hh>
#include <ost/geom/aligned_cuboid.hh>
 
#include <ost/mol/query.hh>
#include <ost/mol/module_config.hh>
#include <ost/mol/residue_base.hh>
#include <ost/mol/entity_visitor_fw.hh>
 
namespace ost { namespace mol {
 
class DLLEXPORT_OST_MOL ResidueHandle : public ResidueBase {
public:
  ResidueHandle();
 
  ResidueHandle(const impl::ResidueImplPtr& impl)
    : ResidueBase(impl) {}
  EntityHandle GetEntity() const;
 
  double GetMass() const;
  
  geom::Vec3 GetCenterOfMass() const;
  
  geom::Vec3 GetCenterOfAtoms() const;
  
  geom::AlignedCuboid GetBounds() const;
  
  ChainHandle GetChain() const;
 
  ResidueHandle GetPrev() const;
 
  ResidueHandle GetNext() const;
 
  AtomHandle FindAtom(const String& aname) const;
 
  void Apply(EntityVisitor& visitor);
 
  AtomHandleList GetAtomList() const;
 
  int GetAtomCount() const;
 
  int GetBondCount() const;
 
  TorsionHandle FindTorsion(const String& torsion_name) const;
 
  TorsionHandleList GetTorsionList() const;
 
  int GetIndex() const;
 
 
  bool HasAltAtomGroup(const String& group) const;
 
  const String& GetCurrentAltGroupName() const;
  
  std::vector<String> GetAltAtomGroupNames() const;
 
  bool HasAltAtoms() const;
  
  geom::Vec3 GetAltAtomPos(const AtomHandle& atom, const String& group) const;
  
  bool SwitchAtomPos(const String& group);
 
  ResidueHandle GetHandle() const;
  unsigned long GetHashCode() const;
 
  EntityView Select(const Query& q, QueryFlags flags=0) const;
 
  EntityView Select(const String& query_string, QueryFlags flags=0) const;
    
  bool operator==(const ResidueHandle& ref) const;
  bool operator!=(const ResidueHandle& ref) const;
  
  
 
};
 
bool DLLEXPORT_OST_MOL InSequence(const ResidueHandle& residue_one,
                                  const ResidueHandle& residue_two);
                                       
 
}} //ns
 
#endif // OST_RESIDUE_HANDLE_HH