BALL  1.4.79
BALL::Protein Member List

This is the complete list of members for BALL::Protein, including all inherited members.

AncestorConstIterator typedefBALL::Composite
AncestorIterator typedefBALL::Composite
append(Atom &atom)BALL::Molecule
append(AtomContainer &atom_container)BALL::Molecule
append(Molecule &molecule)BALL::Moleculeprotected
appendChild(Composite &composite)BALL::Composite
apply(UnaryProcessor< T > &processor)BALL::Composite
apply(ConstUnaryProcessor< T > &processor) constBALL::Composite
apply(UnaryProcessor< T > &processor)BALL::Composite
apply(ConstUnaryProcessor< T > &processor) constBALL::Composite
applyAncestor(UnaryProcessor< T > &processor)BALL::Composite
applyAncestor(ConstUnaryProcessor< T > &processor) constBALL::Composite
applyChild(UnaryProcessor< T > &processor)BALL::Composite
applyChild(ConstUnaryProcessor< T > &processor) constBALL::Composite
applyDescendant(UnaryProcessor< T > &processor)BALL::Composite
applyDescendant(ConstUnaryProcessor< T > &processor) constBALL::Composite
applyDescendantPostorder(UnaryProcessor< T > &processor)BALL::Composite
applyDescendantPostorder(ConstUnaryProcessor< T > &processor) constBALL::Composite
applyDescendantPreorder(UnaryProcessor< T > &processor)BALL::Composite
applyDescendantPreorder(ConstUnaryProcessor< T > &processor) constBALL::Composite
applyInterBond(UnaryProcessor< Bond > &processor)BALL::AtomContainer
applyIntraBond(UnaryProcessor< Bond > &processor)BALL::AtomContainer
applyLevel(UnaryProcessor< T > &processor, long level)BALL::Composite
applyLevel(ConstUnaryProcessor< T > &processor, long level) constBALL::Composite
applyPostorder(UnaryProcessor< T > &processor)BALL::Composite
applyPostorder(ConstUnaryProcessor< T > &processor) constBALL::Composite
applyPreorder(UnaryProcessor< T > &processor)BALL::Composite
applyPreorder(ConstUnaryProcessor< T > &processor) constBALL::Composite
AtomContainer()BALL::AtomContainer
AtomContainer(const AtomContainer &atom_container, bool deep=true)BALL::AtomContainer
AtomContainer(const String &name)BALL::AtomContainer
AutoDeletable()BALL::AutoDeletableprotected
AutoDeletable(const AutoDeletable &auto_deletable, bool deep=false)BALL::AutoDeletableprotected
beginAncestor()BALL::Compositeinline
beginAncestor() constBALL::Compositeinline
beginChildComposite()BALL::Compositeinline
beginChildComposite() constBALL::Compositeinline
beginComposite()BALL::Compositeinline
beginComposite() constBALL::Compositeinline
beginNamedProperty()BALL::PropertyManager
BOTH enum valueBALL::Composite
ChildCompositeConstIterator typedefBALL::Composite
ChildCompositeConstReverseIterator typedefBALL::Composite
ChildCompositeIterator typedefBALL::Composite
ChildCompositeReverseIterator typedefBALL::Composite
clear()BALL::Proteinvirtual
clearLastPtr()BALL::AutoDeletableinlinestatic
clearProperty(Property property)BALL::PropertyManager
clearProperty(const std::string &name)BALL::PropertyManager
clone(Composite &root) constBALL::Composite
compare(const Object &object) constBALL::Object
Composite()BALL::Composite
Composite(const Composite &composite, bool deep=true)BALL::Composite
CompositeConstIterator typedefBALL::Composite
CompositeConstReverseIterator typedefBALL::Composite
CompositeIterator typedefBALL::Composite
CompositeReverseIterator typedefBALL::Composite
containsSelection() constBALL::Composite
count(const KernelPredicateType &predicate) constBALL::Composite
countAtomContainers() constBALL::AtomContainer
countAtoms() constBALL::AtomContainer
countBonds() constBALL::AtomContainer
countChains() constBALL::Protein
countDescendants() constBALL::Composite
countInterBonds() constBALL::AtomContainer
countIntraBonds() constBALL::AtomContainer
countNamedProperties() constBALL::PropertyManager
countPDBAtoms() constBALL::Protein
countProperties() constBALL::PropertyManager
countResidues() constBALL::Protein
countSecondaryStructures() constBALL::Protein
DEFAULT_PROCESSORBALL::Compositestatic
DEFAULT_UNARY_PREDICATEBALL::Compositestatic
deleteChildrenList_(std::list< Composite *> &composites)BALL::Composite
deselect()BALL::Compositevirtual
destroy()BALL::Proteinvirtual
BALL::Composite::destroy(bool virtual_destroy)BALL::Composite
destroyBonds()BALL::AtomContainer
dump(std::ostream &s=std::cout, Size depth=0) constBALL::Proteinvirtual
BALL::PersistentObject::dump(::std::ostream &s=std::cout, Size depth=0) constBALL::Objectvirtual
BALL::Selectable::dump(::std::ostream &s=std::cout, Size depth=0) constBALL::Selectablevirtual
endAncestor()BALL::Compositeinline
endAncestor() constBALL::Compositeinline
endChildComposite()BALL::Compositeinline
endChildComposite() constBALL::Compositeinline
endComposite()BALL::Compositeinline
endComposite() constBALL::Compositeinline
endNamedProperty()BALL::PropertyManager
finalize()BALL::PersistentObjectinlinevirtual
get(Protein &protein, bool deep=true) constBALL::Protein
BALL::Molecule::get(Molecule &molecule, bool deep=true) constBALL::Molecule
BALL::AtomContainer::get(AtomContainer &atom_container, bool deep=true) constBALL::AtomContainer
BALL::Composite::get(Composite &composite, bool deep=true) constBALL::Composite
BALL::Selectable::get(Selectable &selectable, bool deep=true) constBALL::Selectable
BALL::PropertyManager::get(PropertyManager &property_manager) constBALL::PropertyManager
getAncestor(const T &)BALL::Composite
getAncestor(const T &) constBALL::Composite
getAncestor(const T &)BALL::Composite
getAncestor(const T &) constBALL::Composite
getAtom(Position position)BALL::AtomContainer
getAtom(Position position) constBALL::AtomContainer
getAtom(const String &name)BALL::AtomContainer
getAtom(const String &name) constBALL::AtomContainer
getAtomContainer(Position position)BALL::AtomContainer
getAtomContainer(Position position) constBALL::AtomContainer
getBitVector()BALL::PropertyManager
getBitVector() constBALL::PropertyManager
getChain(Position position)BALL::Protein
getChain(Position position) constBALL::Protein
getChild(Index index)BALL::Composite
getChild(Index index) constBALL::Composite
getCTerminal()BALL::Protein
getCTerminal() constBALL::Protein
getDegree() constBALL::Composite
getDepth() constBALL::Composite
getFirstChild()BALL::Composite
getFirstChild() constBALL::Composite
getHandle() constBALL::Object
getHeight() constBALL::Composite
getID() constBALL::Protein
getLastChild()BALL::Composite
getLastChild() constBALL::Composite
getLowestCommonAncestor(const Composite &composite)BALL::Composite
getLowestCommonAncestor(const Composite &composite) constBALL::Composite
getModificationTime() constBALL::Composite
getMolecule()BALL::Moleculeprotected
getMolecule() constBALL::Moleculeprotected
getName() constBALL::AtomContainer
getNamedProperty(Position index) constBALL::PropertyManager
getNamedProperty(Position index)BALL::PropertyManager
getNewHandle()BALL::Objectstatic
getNext(const T &)BALL::Composite
getNext(const T &dummy) constBALL::Composite
getNext(const T &)BALL::Composite
getNext(const T &dummy) constBALL::Composite
getNextHandle()BALL::Objectstatic
getNTerminal()BALL::Protein
getNTerminal() constBALL::Protein
getParent()BALL::Composite
getParent() constBALL::Composite
getPathLength(const Composite &composite) constBALL::Composite
getPDBAtom(Position position)BALL::Protein
getPDBAtom(Position position) constBALL::Protein
getPrevious(const T &)BALL::Composite
getPrevious(const T &dummy) constBALL::Composite
getPrevious(const T &)BALL::Composite
getPrevious(const T &dummy) constBALL::Composite
getProperty(const std::string &name) constBALL::PropertyManager
getResidue(Position position)BALL::Protein
getResidue(Position position) constBALL::Protein
getResidueByID(String residue_ID)BALL::Protein
getResidueByID(String residue_ID) constBALL::Protein
getRoot()BALL::Composite
getRoot() constBALL::Composite
getSecondaryStructure(Position position)BALL::Protein
getSecondaryStructure(Position position) constBALL::Protein
getSelectionTime() constBALL::Composite
getSibling(Index index)BALL::Composite
getSibling(Index index) constBALL::Composite
getSuperAtomContainer()BALL::Moleculeprotected
getSuperAtomContainer() constBALL::Moleculeprotected
getSystem()BALL::Molecule
getSystem() constBALL::Molecule
hasAncestor(const T &dummy) constBALL::Composite
hasAncestor(const T &dummy) constBALL::Composite
hasChild() constBALL::Composite
hasNextSibling() constBALL::Composite
hasParent() constBALL::Composite
hasPreviousSibling() constBALL::Composite
hasProperty(Property property) constBALL::PropertyManager
hasProperty(const std::string &name) constBALL::PropertyManager
hasSibling() constBALL::Composite
host(Visitor< Composite > &visitor)BALL::Composite
insert(Atom &atom)BALL::Molecule
insert(AtomContainer &atom_container)BALL::Molecule
insert(Molecule &molecule)BALL::Moleculeprotected
insertAfter(Atom &atom, Composite &after)BALL::Molecule
insertAfter(AtomContainer &atom_container, Composite &after)BALL::Molecule
insertAfter(Molecule &molecule, Composite &composite)BALL::Moleculeprotected
BALL::Composite::insertAfter(Composite &composite)BALL::Composite
insertBefore(Atom &atom, Composite &before)BALL::Molecule
insertBefore(AtomContainer &atom_container, Composite &before)BALL::Molecule
insertBefore(Molecule &molecule, Composite &composite)BALL::Moleculeprotected
BALL::Composite::insertBefore(Composite &composite)BALL::Composite
insertParent(Composite &parent, Composite &first, Composite &last, bool destroy_parent=true)BALL::Compositestatic
IS_SOLVENT enum valueBALL::Molecule
isAncestorOf(const Composite &composite) constBALL::Composite
isAtom() constBALL::Compositeinlinevirtual
isAutoDeletable() constBALL::AutoDeletable
isChain() constBALL::Compositeinlinevirtual
isChildOf(const Composite &composite) constBALL::Composite
isDescendantOf(const Composite &composite) constBALL::Composite
isEmpty() constBALL::Composite
isFirstChild() constBALL::Composite
isFirstChildOf(const Composite &composite) constBALL::Composite
isFragment() constBALL::Compositeinlinevirtual
isHomomorph(const Composite &composite) constBALL::Composite
isInterior() constBALL::Composite
isLastChild() constBALL::Composite
isLastChildOf(const Composite &composite) constBALL::Composite
isMolecule() constBALL::Moleculeinlinevirtual
isNextSiblingOf(const Composite &composite) constBALL::Composite
isParentOf(const Composite &composite) constBALL::Composite
isPreviousSiblingOf(const Composite &composite) constBALL::Composite
isProtein() constBALL::Proteininlinevirtual
isRelatedWith(const Composite &composite) constBALL::Composite
isResidue() constBALL::Compositeinlinevirtual
isRoot() constBALL::Composite
isRootOf(const Composite &composite) constBALL::Composite
isSelected() constBALL::Selectable
isSiblingOf(const Composite &composite) constBALL::Composite
isSubAtomContainerOf(const AtomContainer &atom_container) constBALL::Moleculeprotected
isSuperAtomContainerOf(const AtomContainer &atom_container) constBALL::AtomContainer
isValid() constBALL::Proteinvirtual
KernelPredicateType typedefBALL::Composite
MODIFICATION enum valueBALL::Composite
Molecule()BALL::Molecule
Molecule(const Molecule &molecule, bool deep=true)BALL::Molecule
Molecule(const AtomContainer &atomContainer, bool deep=true)BALL::Molecule
Molecule(const String &name)BALL::Molecule
NUMBER_OF_PROPERTIES enum valueBALL::Protein
Object()BALL::Object
Object(const Object &object)BALL::Object
operator BitVector &()BALL::PropertyManager
operator delete(void *ptr)BALL::AutoDeletable
operator delete(void *ptr, void *)BALL::AutoDeletable
operator new(size_t size)BALL::AutoDeletable
operator new(size_t size, void *ptr)BALL::AutoDeletable
operator!=(const Protein &protein) constBALL::Protein
BALL::Molecule::operator!=(const Molecule &molecule) constBALL::Molecule
BALL::AtomContainer::operator!=(const AtomContainer &atom_container) constBALL::AtomContainer
BALL::Composite::operator!=(const Composite &composite) constBALL::Composite
BALL::PersistentObject::operator!=(const Object &object) constBALL::Object
BALL::Selectable::operator!=(const Selectable &selectable) constBALL::Selectable
BALL::PropertyManager::operator!=(const PropertyManager &pm) constBALL::PropertyManager
operator<(const Object &object) constBALL::Object
operator<=(const Object &object) constBALL::Object
operator=(const Protein &protein)BALL::Protein
BALL::Molecule::operator=(const Molecule &molecule)BALL::Molecule
BALL::AtomContainer::operator=(const AtomContainer &atom_container)BALL::AtomContainer
BALL::Composite::operator=(const Composite &composite)BALL::Composite
BALL::PersistentObject::operator=(const Object &)BALL::Object
BALL::Selectable::operator=(const Selectable &selectable)BALL::Selectable
BALL::PropertyManager::operator=(const PropertyManager &property_manager)BALL::PropertyManager
operator==(const Protein &protein) constBALL::Protein
BALL::Molecule::operator==(const Molecule &molecule) constBALL::Molecule
BALL::AtomContainer::operator==(const AtomContainer &atom_container) constBALL::AtomContainer
BALL::Composite::operator==(const Composite &composite) constBALL::Composite
BALL::PersistentObject::operator==(const Object &object) constBALL::Object
BALL::Selectable::operator==(const Selectable &selectable) constBALL::Selectable
BALL::PropertyManager::operator==(const PropertyManager &pm) constBALL::PropertyManager
operator>(const Object &object) constBALL::Object
operator>=(const Object &object) constBALL::Object
operator>>(PersistenceManager &pm) constBALL::PersistentObject
PersistentObject()BALL::PersistentObjectinline
persistentRead(PersistenceManager &pm)BALL::Proteinvirtual
persistentWrite(PersistenceManager &pm, const char *name=0) constBALL::Proteinvirtual
prepend(Atom &atom)BALL::Molecule
prepend(AtomContainer &atom_container)BALL::Molecule
prepend(Molecule &molecule)BALL::Moleculeprotected
prependChild(Composite &composite)BALL::Composite
Property enum nameBALL::Protein
PropertyManager()BALL::PropertyManager
PropertyManager(const PropertyManager &property_manager)BALL::PropertyManager
Protein()BALL::Protein
Protein(const Protein &protein, bool deep=true)BALL::Protein
Protein(const String &name, const String &id=BALL_PROTEIN_DEFAULT_ID)BALL::Protein
rbeginChildComposite()BALL::Compositeinline
rbeginChildComposite() constBALL::Compositeinline
rbeginComposite()BALL::Compositeinline
rbeginComposite() constBALL::Compositeinline
BALL::read(PersistenceManager &pm)BALL::Selectable
BALL::PropertyManager::read(PersistenceManager &pm)BALL::PropertyManager
remove(Atom &atom)BALL::Molecule
remove(AtomContainer &atom_container)BALL::Molecule
remove(Molecule &molecule)BALL::Moleculeprotected
removeChild(Composite &child)BALL::Composite
removeHavingProperty(BALL::Property p)BALL::AtomContainer
removeHavingProperty(const string &name)BALL::AtomContainer
removeNotHavingProperty(BALL::Property p)BALL::AtomContainer
removeNotHavingProperty(const string &name)BALL::AtomContainer
removeSelected()BALL::Composite
removeUnselected()BALL::Composite
rendChildComposite()BALL::Compositeinline
rendChildComposite() constBALL::Compositeinline
rendComposite()BALL::Compositeinline
rendComposite() constBALL::Compositeinline
replace(Composite &composite)BALL::Composite
select()BALL::Compositevirtual
Selectable()BALL::Selectable
Selectable(const Selectable &selectable, bool deep=true)BALL::Selectable
selected_BALL::Selectableprotected
SELECTION enum valueBALL::Composite
set(const Protein &protein, bool deep=true)BALL::Protein
BALL::Molecule::set(const Molecule &molecule, bool deep=true)BALL::Molecule
BALL::AtomContainer::set(const AtomContainer &atom_container, bool deep=true)BALL::AtomContainer
BALL::Composite::set(const Composite &composite, bool deep=true)BALL::Composite
BALL::Selectable::set(const Selectable &selectable, bool deep=true)BALL::Selectable
BALL::PropertyManager::set(const PropertyManager &property_manager)BALL::PropertyManager
setAutoDeletable(bool enable)BALL::AutoDeletable
setID(const String &id)BALL::Protein
setName(const String &name)BALL::AtomContainer
setProperty(Property property)BALL::PropertyManager
setProperty(const NamedProperty &property)BALL::PropertyManager
setProperty(const std::string &name)BALL::PropertyManager
setProperty(const std::string &name, bool value)BALL::PropertyManager
setProperty(const std::string &name, int value)BALL::PropertyManager
setProperty(const std::string &name, unsigned int value)BALL::PropertyManager
setProperty(const std::string &name, float value)BALL::PropertyManager
setProperty(const std::string &name, double value)BALL::PropertyManager
setProperty(const std::string &name, const std::string &value)BALL::PropertyManager
setProperty(const std::string &name, const PersistentObject &value)BALL::PropertyManager
setSelected(bool selected)BALL::Selectableinlinevirtual
splice(AtomContainer &atom_container)BALL::Molecule
BALL::Composite::splice(Composite &composite)BALL::Composite
spliceAfter(AtomContainer &atom_container)BALL::Molecule
BALL::Composite::spliceAfter(Composite &composite)BALL::Composite
spliceBefore(AtomContainer &atom_container)BALL::Molecule
BALL::Composite::spliceBefore(Composite &composite)BALL::Composite
stamp(StampType stamp=BOTH)BALL::Composite
StampType enum nameBALL::Composite
swap(Protein &protein)BALL::Protein
BALL::Molecule::swap(Molecule &molecule)BALL::Molecule
BALL::AtomContainer::swap(AtomContainer &atom_container)BALL::AtomContainer
BALL::Composite::swap(Composite &composite)BALL::Composite
BALL::Selectable::swap(Selectable &selectable)BALL::Selectable
BALL::PropertyManager::swap(PropertyManager &property_manager)BALL::PropertyManager
toggleProperty(Property property)BALL::PropertyManager
BALL::write(PersistenceManager &pm) constBALL::Selectable
BALL::PropertyManager::write(PersistenceManager &pm) constBALL::PropertyManager
~AtomContainer()BALL::AtomContainervirtual
~AutoDeletable()BALL::AutoDeletablevirtual
~Composite()BALL::Compositevirtual
~Molecule()BALL::Moleculevirtual
~Object()BALL::Objectvirtual
~PersistentObject()BALL::PersistentObjectinlinevirtual
~PropertyManager()BALL::PropertyManagervirtual
~Protein()BALL::Proteinvirtual
~Selectable()BALL::Selectablevirtual