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| | FragmentResidue () |
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| | FragmentResidue (Fragment *fragment, char const *symbol) |
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| virtual | ~FragmentResidue () |
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| xmlNodePtr | Save (xmlDocPtr xml) const |
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| bool | Load (xmlNodePtr node) |
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| void | SetResidue (Residue const *res, char const *symbol=NULL) |
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| const gchar * | GetSymbol () const |
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| Residue const * | GetResidue (void) const |
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| std::string | GetAbbrev (void) const |
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| | FragmentAtom () |
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| | FragmentAtom (Fragment *fragment, int Z) |
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| virtual | ~FragmentAtom () |
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| void | SetZ (int Z) |
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| bool | AcceptNewBonds (int nb) |
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| void | Update () |
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| void | AddItem () |
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| void | UpdateItem () |
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| void | SetSelected (int state) |
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| gccv::Anchor | GetChargePosition (unsigned char &Pos, double Angle, double &x, double &y) |
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| int | GetAvailablePosition (double &x, double &y) |
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| bool | GetPosition (double angle, double &x, double &y) |
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| bool | AcceptCharge (int charge) |
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| void | AddToMolecule (Molecule *Mol) |
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| bool | Match (gcu::Atom *atom, gcu::AtomMatchState &state) |
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| void | DoBuildSymbolGeometry (View *pView) |
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| Fragment const * | GetFragment (void) const |
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| | Atom () |
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| | Atom (int Z, double x, double y, double z) |
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| virtual | ~Atom () |
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| void | AddBond (gcu::Bond *pBond) |
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| void | RemoveBond (gcu::Bond *pBond) |
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| int | GetTotalBondsNumber () const |
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| int | GetAttachedHydrogens () const |
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| HPos | GetBestSide () |
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| virtual bool | GetRelativePosition (double angle, double &x, double &y) |
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| virtual bool | LoadNode (xmlNodePtr node) |
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| virtual double | GetYAlign () |
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| virtual void | Move (double x, double y, double z=0.) |
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| virtual void | Transform2D (gcu::Matrix2D &m, double x, double y) |
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| bool | BuildContextualMenu (gcu::UIManager *UIManager, Object *object, double x, double y) |
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| bool | HasImplicitElectronPairs () |
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| bool | MayHaveImplicitUnpairedElectrons () |
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| void | AddElectron (Electron *electron) |
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| void | RemoveElectron (Electron *electron) |
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| void | NotifyPositionOccupation (unsigned char pos, bool occupied) |
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| void | SetChargePosition (unsigned char Pos, bool def, double angle=0., double distance=0.) |
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| char | GetChargePosition (double *Angle, double *Dist) const |
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| void | SetCharge (int charge) |
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| int | GetCharge () const |
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| void | ForceChanged () |
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| void | GetSymbolGeometry (double &width, double &height, double &angle, bool up) const |
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| bool | HasAvailableElectrons (bool paired) |
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| Bond * | GetBondAtAngle (double angle) |
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| bool | UpdateStereoBonds () |
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| bool | HasStereoBond () const |
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| Bond * | GetNewmanBond () const |
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| void | SetShowSymbol (bool val) |
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| bool | GetShowSymbol (void) const |
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| bool & | GetRefShowSymbol (void) |
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| void | SetHPosStyle (HPos val) |
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| HPos | GetHPosStyle (void) const |
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| HPos & | GetRefHPosStyle (void) |
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| void | SetChargeItem (gccv::Item *val) |
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| gccv::Item * | GetChargeItem (void) |
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| void | SetShowCharge (bool val) |
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| bool | GetShowCharge (void) const |
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| | Atom () |
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| | Atom (int Z, double x, double y, double z=0.) |
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| | Atom (Atom &a) |
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| Atom & | operator= (Atom &a) |
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| double | Distance (Atom *pAtom) |
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| void | zoom (double ZoomFactor) |
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| bool | GetCoords (double *x, double *y, double *z=NULL) const |
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| void | SetCoords (double x, double y, double z=0) |
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| int | GetZ () const |
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| virtual void | SetCharge (char Charge) |
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| char | GetCharge () |
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| double | x () const |
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| double | y () const |
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| double | z () const |
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| Vector | GetVector () const |
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| Bond * | GetFirstBond (std::map< Atom *, Bond * >::iterator &i) |
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| Bond const * | GetFirstBond (std::map< Atom *, Bond * >::const_iterator &i) const |
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| Bond * | GetNextBond (std::map< Atom *, Bond * >::iterator &i) |
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| Bond const * | GetNextBond (std::map< Atom *, Bond * >::const_iterator &i) const |
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| Bond * | GetBond (Atom *pAtom) const |
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| int | GetBondsNumber () const |
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| virtual bool | SaveNode (xmlDocPtr xml, xmlNodePtr node) const |
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| std::string | GetProperty (unsigned property) const |
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| bool | IsInCycle (Cycle *pCycle) |
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| std::string | Name () |
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| void | NetToCartesian (double a, double b, double c, double alpha, double beta, double gamma) |
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| | Object (TypeId Id=OtherType) |
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| virtual | ~Object () |
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| TypeId | GetType () const |
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| void | SetId (gchar const *Id) |
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| char const * | GetId () const |
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| virtual void | AddChild (Object *object) |
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| Object * | GetMolecule () const |
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| Object * | GetReaction () const |
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| Object * | GetGroup () const |
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| Document * | GetDocument () const |
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| Application * | GetApplication () const |
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| Object * | GetParentOfType (TypeId Id) const |
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| Object * | GetChild (const gchar *Id) const |
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| Object * | GetFirstChild (std::map< std::string, Object * >::iterator &i) |
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| Object * | GetNextChild (std::map< std::string, Object * >::iterator &i) |
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| Object * | GetDescendant (const char *Id) const |
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| Object * | GetParent () const |
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| void | SetParent (Object *Parent) |
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| bool | SaveChildren (xmlDocPtr xml, xmlNodePtr node) const |
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| void | SaveId (xmlNodePtr node) const |
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| xmlNodePtr | GetNodeByProp (xmlNodePtr node, char const *Property, char const *Id) |
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| xmlNodePtr | GetNextNodeByProp (xmlNodePtr node, char const *Property, char const *Id) |
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| xmlNodePtr | GetNodeByName (xmlNodePtr node, char const *Name) |
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| xmlNodePtr | GetNextNodeByName (xmlNodePtr node, char const *Name) |
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| bool | HasChildren () const |
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| unsigned | GetChildrenNumber () const |
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| virtual Object * | GetAtomAt (double x, double y, double z=0.) |
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| virtual bool | Build (std::set< Object * > const &Children) throw (std::invalid_argument) |
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| virtual bool | BuildContextualMenu (UIManager *uim, Object *object, double x, double y) |
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| void | EmitSignal (SignalId Signal) |
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| virtual bool | OnSignal (SignalId Signal, Object *Child) |
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| void | Lock (bool state=true) |
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| bool | IsLocked () |
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| Object * | GetFirstLink (std::set< Object * >::iterator &i) |
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| Object * | GetNextLink (std::set< Object * >::iterator &i) |
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| void | Link (Object *object) |
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| void | Unlink (Object *object) |
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| virtual void | OnUnlink (Object *object) |
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| void | GetPossibleAncestorTypes (std::set< TypeId > &types) const |
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| virtual void | OnLoaded () |
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| void | SetDirty (bool dirty=true) |
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| virtual void | Clear () |
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| std::string | Identity () |
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| virtual char const * | HasPropertiesDialog () const |
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| virtual bool | CanSelect () const |
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| virtual void | NotifyEmpty () |
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| void | ShowPropertiesDialog () |
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| bool | GetDirty (void) const |
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| | DialogOwner () |
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| virtual | ~DialogOwner () |
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| Dialog * | GetDialog (std::string name) const |
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| void | ClearDialogs () |
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| | ItemClient () |
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| virtual | ~ItemClient () |
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| Item * | GetItem (void) |
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| static TypeId | AddType (std::string TypeName, Object *(*CreateFunc)(), TypeId id=OtherType) |
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| static void | AddAlias (TypeId id, std::string TypeName) |
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| static Object * | CreateObject (const std::string &TypeName, Object *parent=NULL) |
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| static TypeId | GetTypeId (const std::string &Name) |
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| static std::string | GetTypeName (TypeId Id) |
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| static void | AddMenuCallback (TypeId Id, BuildMenuCb cb) |
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| static void | AddRule (TypeId type1, RuleId rule, TypeId type2) |
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| static void | AddRule (const std::string &type1, RuleId rule, const std::string &type2) |
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| static const std::set< TypeId > & | GetRules (TypeId type, RuleId rule) |
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| static const std::set< TypeId > & | GetRules (const std::string &type, RuleId rule) |
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| static void | SetCreationLabel (TypeId Id, std::string Label) |
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| static const std::string & | GetCreationLabel (TypeId Id) |
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| static const std::string & | GetCreationLabel (const std::string &TypeName) |
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| static SignalId | CreateNewSignalId () |
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| void | BuildSymbolGeometry (double width, double height, double ascent) |
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| bool | SetProperty (unsigned property, char const *value) |
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| virtual Dialog * | BuildPropertiesDialog () |
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| double | m_CHeight |
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| int | m_Z |
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| double | m_x |
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| double | m_y |
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| double | m_z |
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| char | m_Charge |
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| std::map< Atom *, Bond * > | m_Bonds |
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| Item * | m_Item |
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Represents a residue inside a atoms group (see gcp::Fragment class).
Definition at line 38 of file fragment-residue.h.