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// -*- Mode: C++; tab-width: 2; -*-
// vi: set ts=2:
//
#include <BALL/KERNEL/molecule.h>
#include <BALL/KERNEL/system.h>
using namespace::std;
namespace BALL
{
Molecule::Molecule()
: AtomContainer()
{
}
Molecule::Molecule(const Molecule& molecule,bool deep)
: AtomContainer(molecule, deep)
{
}
Molecule::Molecule(const AtomContainer& atomContainer, bool deep)
: AtomContainer(atomContainer, deep)
{
}
Molecule::Molecule(const String& name)
: AtomContainer(name)
{
}
Molecule::~Molecule()
{
destroy();
}
void Molecule::persistentWrite(PersistenceManager& pm, const char* name) const
{
pm.writeObjectHeader(this, name);
AtomContainer::persistentWrite(pm);
pm.writeObjectTrailer(name);
}
void Molecule::persistentRead(PersistenceManager& pm)
{
pm.checkObjectHeader(RTTI::getStreamName<AtomContainer>());
AtomContainer::persistentRead(pm);
pm.checkObjectTrailer(0);
}
void Molecule::set(const Molecule& molecule, bool deep)
{
AtomContainer::set(molecule, deep);
}
Molecule& Molecule::operator = (const Molecule& molecule)
{
set(molecule);
return *this;
}
void Molecule::get(Molecule& molecule, bool deep) const
{
molecule.set(*this, deep);
}
void Molecule::swap(Molecule& molecule)
{
AtomContainer::swap(molecule);
}
System* Molecule::getSystem()
{
for (Composite::AncestorIterator ancestor_it = beginAncestor();
!ancestor_it.isEnd(); ++ancestor_it)
{
if (RTTI::isKindOf<System>(&*ancestor_it))
{
return (System *)&*ancestor_it;
}
}
return 0;
}
const System* Molecule::getSystem() const
{
return ((Molecule *)this)->getSystem();
}
void Molecule::prepend(Atom& atom)
{
AtomContainer::prepend(atom);
}
void Molecule::append(Atom& atom)
{
AtomContainer::append(atom);
}
void Molecule::insert(Atom& atom)
{
AtomContainer::insert(atom);
}
void Molecule::insertBefore(Atom& atom, Composite& before)
{
AtomContainer::insertBefore(atom, before);
}
void Molecule::insertAfter(Atom& atom, Composite& after)
{
AtomContainer::insertAfter(atom, after);
}
bool Molecule::remove(Atom& atom)
{
return AtomContainer::remove(atom);
}
void Molecule::prepend(AtomContainer& atom_container)
{
AtomContainer::prepend(atom_container);
}
void Molecule::append(AtomContainer& atom_container)
{
AtomContainer::append(atom_container);
}
void Molecule::insert(AtomContainer& atom_container)
{
AtomContainer::insert(atom_container);
}
void Molecule::insertBefore(AtomContainer& atom_container, Composite& before)
{
AtomContainer::insertBefore(atom_container, before);
}
void Molecule::insertAfter(AtomContainer& atom_container, Composite& after)
{
AtomContainer::insertAfter(atom_container, after);
}
void Molecule::spliceBefore(AtomContainer& atom_container)
{
AtomContainer::spliceBefore(atom_container);
}
void Molecule::spliceAfter(AtomContainer& atom_container)
{
AtomContainer::spliceAfter(atom_container);
}
void Molecule::splice(AtomContainer& atom_container)
{
AtomContainer::splice(atom_container);
}
bool Molecule::remove(AtomContainer& atom_container)
{
return AtomContainer::remove(atom_container);
}
void Molecule::dump(ostream& s, Size depth) const
{
BALL_DUMP_STREAM_PREFIX(s)
AtomContainer::dump(s, depth);
// just to avoid these damned compiler warnings
// (dump_indent_depth_ was declared but never referenced)
if (dump_indent_depth_ == 0) {};
BALL_DUMP_STREAM_SUFFIX(s)
}
bool Molecule::operator == (const Molecule& molecule) const
{
return(Object::operator == (molecule));
}
bool Molecule::operator != (const Molecule& molecule) const
{
return ! (*this == molecule);
}
} // namespace BALL
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