| AbstractMotif() | bio::chemical::AbstractMotif |  | 
  | Add(const T t) | bio::chemical::UnorderedStructureInterface | inline | 
  | AddImplementation(Substance * content) | bio::chemical::LinearMotif< Substance * > | inlinevirtual | 
  | UnorderedMotif< Substance * >::AddImplementation(const Substance * content) | bio::chemical::UnorderedMotif< Substance * > | inlinevirtual | 
  | As() | bio::chemical::Atom | inline | 
  | As() const | bio::chemical::Atom | inline | 
  | AsAtom() | bio::physical::Wave | inlinevirtual | 
  | AsAtom() const | bio::physical::Wave | inlinevirtual | 
  | AsBonded() | bio::chemical::Atom | inline | 
  | AsBonded() const | bio::chemical::Atom | inline | 
  | AsBondedQuantum() | bio::chemical::Atom | inline | 
  | AsBondedQuantum() const | bio::chemical::Atom | inline | 
  | bio::AsWave() | bio::physical::Class< Atom > | inlinevirtual | 
  | bio::AsWave() const | bio::physical::Class< Atom > | inlinevirtual | 
  | Class< Reactants >::bio::AsWave() | bio::physical::Class< T > | inlinevirtual | 
  | Class< Reactants >::AsWave() const | bio::physical::Class< T > | inlinevirtual | 
  | Class< Reactants >::Identifiable< StandardDimension >::AsWave() | bio::physical::Class< Identifiable< StandardDimension > > | inlinevirtual | 
  | Class< Reactants >::Identifiable< StandardDimension >::AsWave() const | bio::physical::Class< Identifiable< StandardDimension > > | inlinevirtual | 
  | Class< Reactants >::bio::log::Writer::bio::AsWave() | bio::physical::Class< Filterable > | inlinevirtual | 
  | Class< Reactants >::bio::log::Writer::AsWave() const | bio::physical::Class< Filterable > | inlinevirtual | 
  | Class< Reactants >::bio::log::Writer::Class< Writer >::AsWave() | bio::physical::Class< Writer > | inlinevirtual | 
  | Class< Writer >::AsWave() const | bio::physical::Class< Writer > | inlinevirtual | 
  | Atom(const Atom &other) | bio::chemical::Atom | explicit | 
  | bio::Attenuate(const Wave *other) | bio::chemical::Atom | virtual | 
  | bio::Class< Atom >::Attenuate(const Wave *other) | bio::physical::Wave | virtual | 
  | LinearMotif< Substance * >::Attenuate(const physical::Wave *other) | bio::chemical::LinearMotif< Substance * > | inlinevirtual | 
  | BIO_DISAMBIGUATE_ALL_CLASS_METHODS(chemical, Reactants) Reactants() | bio::chemical::Reactants |  | 
  | bio::chemical::Structure::BIO_DISAMBIGUATE_ALL_CLASS_METHODS(physical, Atom) explicit Atom() | bio::chemical::Atom |  | 
  | Class< Reactants >::BIO_DISAMBIGUATE_ALL_CLASS_METHODS(physical, Reactants) Class(Reactants *object | bio::chemical::Class< Reactants > |  | 
  | Class< Reactants >::Identifiable< StandardDimension >::BIO_DISAMBIGUATE_ALL_CLASS_METHODS(physical, Identifiable< StandardDimension >) explicit Identifiable(Perspective< StandardDimension > *perspective | bio::physical::Identifiable< StandardDimension > |  | 
  | Class< Reactants >::bio::log::Writer::BIO_DISAMBIGUATE_ALL_CLASS_METHODS(physical, Writer) Writer() | bio::log::Writer |  | 
  | Class< Reactants >::bio::physical::Filterable::BIO_DISAMBIGUATE_ALL_CLASS_METHODS(physical, Filterable) Filterable() | bio::physical::Filterable |  | 
  | LinearMotif< Substance * >::BIO_DISAMBIGUATE_ALL_CLASS_METHODS(physical, LinearMotif< Substance * >) Class(LinearMotif< Substance * > *object | bio::chemical::Class< LinearMotif< Substance * > > |  | 
  | LinearMotif< Substance * >::BIO_DISAMBIGUATE_ALL_CLASS_METHODS(chemical, UnorderedMotif< Substance * >) UnorderedMotif() | bio::chemical::UnorderedMotif< Substance * > | inline | 
  | Class< UnorderedMotif< Substance * > >::BIO_DISAMBIGUATE_ALL_CLASS_METHODS(physical, UnorderedMotif< Substance * >) Class(UnorderedMotif< Substance * > *object | bio::chemical::Class< UnorderedMotif< Substance * > > |  | 
  | BIO_DISAMBIGUATE_REQUIRED_CLASS_METHODS(chemical, LinearMotif< Substance * >) BIO_DISAMBIGUATE_OPTIONAL_CLASS_METHODS(physical | bio::chemical::LinearMotif< Substance * > |  | 
  | BreakBond(T toDisassociate, BondType type=bond_type::Unknown()) | bio::chemical::Atom | inline | 
  | BreakBondImplementation(Wave *toDisassociate, AtomicNumber id, BondType type) | bio::chemical::Atom | protectedvirtual | 
  | bio::Class(Atom *object, Symmetry *symmetry=NULL) | bio::physical::Class< Atom > | inline | 
  | Class< Reactants >::bio::Class(T *object, Symmetry *symmetry=NULL) | bio::physical::Class< T > | inline | 
  | Class< Reactants >::Identifiable< StandardDimension >::Class(Identifiable< StandardDimension > *object, Symmetry *symmetry=NULL) | bio::physical::Class< Identifiable< StandardDimension > > | inline | 
  | Class< Reactants >::bio::log::Writer::bio::Class(Filterable *object, Symmetry *symmetry=NULL) | bio::physical::Class< Filterable > | inline | 
  | Class< Reactants >::bio::log::Writer::Class< Writer >::Class(Writer *object, Symmetry *symmetry=NULL) | bio::physical::Class< Writer > | inline | 
  | LinearMotif< Substance * >::Class< LinearMotif< Substance * > >::bio::Class< LinearMotif< Substance * > >::Class(T *object, Symmetry *symmetry=NULL) | bio::physical::Class< T > | inline | 
  | LinearMotif< Substance * >::UnorderedMotif< Substance * >::bio::Class(T *object, Symmetry *symmetry=NULL) | bio::physical::Class< T > | inline | 
  | Clear() | bio::chemical::UnorderedStructureInterface | inline | 
  | ClearImplementation() | bio::chemical::LinearMotif< Substance * > | inlinevirtual | 
  | bio::Clone() const | bio::physical::Class< Atom > | inlinevirtual | 
  | Class< Reactants >::bio::Clone() const | bio::physical::Class< T > | inlinevirtual | 
  | Class< Reactants >::Identifiable< StandardDimension >::Clone() const | bio::physical::Class< Identifiable< StandardDimension > > | inlinevirtual | 
  | Class< Reactants >::bio::log::Writer::bio::Clone() const | bio::physical::Class< Filterable > | inlinevirtual | 
  | Class< Reactants >::bio::log::Writer::Class< Writer >::Clone() const | bio::physical::Class< Writer > | inlinevirtual | 
  | CloneIntoName(Name name) | bio::physical::Identifiable< StandardDimension > | inline | 
  | Contents typedef | bio::chemical::LinearMotif< Substance * > |  | 
  | bio::Convert(Wave *wave) | bio::physical::Class< Atom > | inline | 
  | Class< Reactants >::bio::Convert(Wave *wave) | bio::physical::Class< T > | inline | 
  | Class< Reactants >::Identifiable< StandardDimension >::Convert(Wave *wave) | bio::physical::Class< Identifiable< StandardDimension > > | inline | 
  | Class< Reactants >::bio::log::Writer::bio::Convert(Wave *wave) | bio::physical::Class< Filterable > | inline | 
  | Class< Reactants >::bio::log::Writer::Class< Writer >::Convert(Wave *wave) | bio::physical::Class< Writer > | inline | 
  | LinearMotif< Substance * >::Class< LinearMotif< Substance * > >::bio::Class< LinearMotif< Substance * > >::Convert(Wave *wave) | bio::physical::Class< T > | inline | 
  | LinearMotif< Substance * >::UnorderedMotif< Substance * >::bio::Convert(Wave *wave) | bio::physical::Class< T > | inline | 
  | CreateImplementation(StandardDimension id) | bio::chemical::LinearMotif< Substance * > | inlinevirtual | 
  | Demodulate() | bio::physical::Wave | virtual | 
  | Demodulate() const | bio::physical::Wave | virtual | 
  | bio::Disattenuate(const Wave *other) | bio::chemical::Atom | virtual | 
  | bio::Class< Atom >::Disattenuate(const Wave *other) | bio::physical::Wave | virtual | 
  | LinearMotif< Substance * >::Disattenuate(const physical::Wave *other) | bio::chemical::LinearMotif< Substance * > | inlinevirtual | 
  | Elementary(const Properties properties) | bio::chemical::Elementary< LinearMotif< Substance * > > | inline | 
  | Elementary() | bio::chemical::Elementary< LinearMotif< Substance * > > | inline | 
  | ExternalLog(Filter logFilter, Level level, const char *format,...) const | bio::log::Writer |  | 
  | Class< Reactants >::filter | bio::chemical::Class< Reactants > |  | 
  | LinearMotif< Substance * >::Class< LinearMotif< Substance * > >::filter | bio::chemical::Class< LinearMotif< Substance * > > |  | 
  | LinearMotif< Substance * >::UnorderedMotif< Substance * >::filter | bio::chemical::Class< UnorderedMotif< Substance * > > |  | 
  | Filterable(Filter filter) | bio::physical::Filterable |  | 
  | ForEach(ExcitationBase *excitation) | bio::chemical::LinearStructureInterface | inline | 
  | ForEachImplementation(ExcitationBase *excitation) | bio::chemical::LinearMotif< Substance * > | inlinevirtual | 
  | FormBond(T toBond, BondType type=bond_type::Unknown()) | bio::chemical::Atom | inline | 
  | FormBondImplementation(Wave *toBond, AtomicNumber id, BondType type) | bio::chemical::Atom | protectedvirtual | 
  | GetAll() | bio::chemical::UnorderedStructureInterface | inline | 
  | GetAll() const | bio::chemical::UnorderedStructureInterface | inline | 
  | GetAllAsVector() | bio::chemical::UnorderedStructureInterface | inline | 
  | GetAllAsVector() const | bio::chemical::UnorderedStructureInterface | inline | 
  | GetAllBonds() | bio::chemical::Atom |  | 
  | GetAllBonds() const | bio::chemical::Atom |  | 
  | GetAllImplementation() | bio::chemical::AbstractMotif | virtual | 
  | GetAllImplementation() const | bio::chemical::AbstractMotif | virtual | 
  | GetBonded(Valence position) | bio::chemical::Atom |  | 
  | GetBonded(Valence position) const | bio::chemical::Atom |  | 
  | GetBondPosition(AtomicNumber bondedId) const | bio::chemical::Atom |  | 
  | GetBondPosition(Name typeName) const | bio::chemical::Atom |  | 
  | GetBondPosition() const | bio::chemical::Atom | inline | 
  | GetBondType(Valence position) const | bio::chemical::Atom |  | 
  | GetBondType() const | bio::chemical::Atom | inline | 
  | GetById(StandardDimension id) | bio::chemical::LinearStructureInterface | inline | 
  | GetById(StandardDimension id) const | bio::chemical::LinearStructureInterface | inline | 
  | GetByIdImplementation(StandardDimension id) | bio::chemical::LinearMotif< Substance * > | inlinevirtual | 
  | GetByIdImplementation(StandardDimension id) const | bio::chemical::LinearMotif< Substance * > | inlinevirtual | 
  | GetByName(Name name) | bio::chemical::LinearStructureInterface | inline | 
  | GetByName(Name name) const | bio::chemical::LinearStructureInterface | inline | 
  | GetByNameImplementation(Name name) | bio::chemical::LinearMotif< Substance * > | inlinevirtual | 
  | GetByNameImplementation(Name name) const | bio::chemical::LinearMotif< Substance * > | inlinevirtual | 
  | GetClassProperties() | bio::chemical::LinearMotif< Substance * > | inlinestatic | 
  | GetCount() const | bio::chemical::UnorderedStructureInterface | inline | 
  | GetCountImplementation() const | bio::chemical::UnorderedMotif< Substance * > | inlinevirtual | 
  | GetFilter() const | bio::physical::Filterable |  | 
  | GetLogEngine() | bio::log::Writer |  | 
  | GetLogEngine() const | bio::log::Writer |  | 
  | GetNumMatching(const Container *other) const | bio::chemical::UnorderedStructureInterface | inline | 
  | GetNumMatchingImplementation(const Container *other) const | bio::chemical::UnorderedMotif< Substance * > | inlinevirtual | 
  | GetOrCreateById(StandardDimension id) | bio::chemical::LinearStructureInterface | inline | 
  | GetOrCreateByIdImplementation(StandardDimension id) | bio::chemical::LinearMotif< Substance * > | inlinevirtual | 
  | GetOrCreateByName(Name name) | bio::chemical::LinearStructureInterface | inline | 
  | GetOrCreateByNameImplementation(Name name) | bio::chemical::LinearMotif< Substance * > | inlinevirtual | 
  | GetPerspective() const | bio::physical::Observer< Perspective< StandardDimension > > | inlinevirtual | 
  | GetProperties() const | bio::physical::Wave | virtual | 
  | bio::GetResonanceBetween(ConstWaves waves) | bio::physical::Wave | static | 
  | bio::GetResonanceBetween(const Wave *wave1, const Wave *wave2) | bio::physical::Wave | static | 
  | bio::GetResonanceBetween(const Wave *wave, const Properties &properties) | bio::physical::Wave | static | 
  | Class< Reactants >::GetResonanceBetween(ConstWaves waves) | bio::physical::Wave | static | 
  | Class< Reactants >::GetResonanceBetween(const Wave *wave1, const Wave *wave2) | bio::physical::Wave | static | 
  | Class< Reactants >::GetResonanceBetween(const Wave *wave, const Properties &properties) | bio::physical::Wave | static | 
  | LinearMotif< Substance * >::GetResonanceBetween(ConstWaves waves) | bio::physical::Wave | static | 
  | LinearMotif< Substance * >::GetResonanceBetween(const Wave *wave1, const Wave *wave2) | bio::physical::Wave | static | 
  | LinearMotif< Substance * >::GetResonanceBetween(const Wave *wave, const Properties &properties) | bio::physical::Wave | static | 
  | UnorderedMotif< Substance * >::GetResonanceBetween(ConstWaves waves) | bio::physical::Wave | static | 
  | UnorderedMotif< Substance * >::GetResonanceBetween(const Wave *wave1, const Wave *wave2) | bio::physical::Wave | static | 
  | UnorderedMotif< Substance * >::GetResonanceBetween(const Wave *wave, const Properties &properties) | bio::physical::Wave | static | 
  | GetStringFrom(std::string separator=", ") | bio::chemical::UnorderedStructureInterface | inline | 
  | GetStringFromImplementation(std::string separator=", ") | bio::chemical::LinearMotif< Substance * > | inlinevirtual | 
  | GetStructuralPerspective() | bio::chemical::LinearMotif< Substance * > | inline | 
  | GetStructuralPerspective() const | bio::chemical::LinearMotif< Substance * > | inline | 
  | Has(T content) const | bio::chemical::UnorderedStructureInterface | inline | 
  | HasAll(const Container *contents) const | bio::chemical::UnorderedStructureInterface | inline | 
  | HasAllImplementation(const Container *contents) const | bio::chemical::UnorderedMotif< Substance * > | inlinevirtual | 
  | HasImplementation(const Substance * &content) const | bio::chemical::LinearMotif< Substance * > | inlinevirtual | 
  | UnorderedMotif< Substance * >::HasImplementation(const Substance * content) const | bio::chemical::UnorderedMotif< Substance * > | inlinevirtual | 
  | HasLogEngine() const | bio::log::Writer |  | 
  | hasRegistered | bio::chemical::Elementary< LinearMotif< Substance * > > | static | 
  | Id typedef | bio::physical::Identifiable< StandardDimension > |  | 
  | Ids typedef | bio::physical::Identifiable< StandardDimension > |  | 
  | Import(const UnorderedMotif< T > *other) | bio::chemical::UnorderedStructureInterface | inline | 
  | Import(const std::vector< T > &other) | bio::chemical::UnorderedStructureInterface | inline | 
  | ImportAll(const physical::Wave *other) | bio::chemical::UnorderedStructureInterface | inline | 
  | ImportImplementation(const LinearMotif< Substance * > *other) | bio::chemical::LinearMotif< Substance * > | inlinevirtual | 
  | UnorderedMotif< Substance * >::ImportImplementation(const UnorderedMotif< Substance * > *other) | bio::chemical::UnorderedMotif< Substance * > | inlinevirtual | 
  | bio::chemical::AbstractMotif::ImportImplementation(const void *other) | bio::chemical::AbstractMotif | inlinevirtual | 
  | Initialize(ByteStreams args) | bio::VirtualBase | protected | 
  | Initialize(ByteStream arg1) | bio::VirtualBase | protected | 
  | Initialize(ByteStream arg1, ByteStream arg2) | bio::VirtualBase | protected | 
  | Initialize(ByteStream arg1, ByteStream arg2, ByteStream arg3) | bio::VirtualBase | protected | 
  | Class< Reactants >::Identifiable< StandardDimension >::InitializeImplementation(ByteStreams args) | bio::physical::Observer< Perspective< StandardDimension > > | inlineprotectedvirtual | 
  | bio::log::Writer::InitializeImplementation(ByteStreams args) | bio::log::Writer | protectedvirtual | 
  | Insert(T toAdd, const Position position=BOTTOM, const StandardDimension optionalPositionArg=0, const bool transferSubContents=false) | bio::chemical::LinearStructureInterface | inline | 
  | InsertImplementation(Substance * toAdd, const Position position=BOTTOM, const StandardDimension optionalPositionArg=0, const bool transferSubContents=false) | bio::chemical::LinearMotif< Substance * > | inlinevirtual | 
  | LinearMotif(physical::Perspective< StandardDimension > *perspective=NULL) | bio::chemical::LinearMotif< Substance * > | inlineexplicit | 
  | LinearMotif(const Contents *contents, physical::Perspective< StandardDimension > *perspective=NULL) | bio::chemical::LinearMotif< Substance * > | inlineexplicit | 
  | LinearMotif(const LinearMotif< Substance * > &toCopy) | bio::chemical::LinearMotif< Substance * > | inline | 
  | LinearStructureInterface() | bio::chemical::LinearStructureInterface | inline | 
  | LockThread() const | bio::ThreadSafe |  | 
  | Log(Level level, const char *format,...) const | bio::log::Writer | protected | 
  | m_bonds | bio::chemical::Atom | protected | 
  | m_contents | bio::chemical::AbstractMotif | mutableprotected | 
  | m_filter | bio::physical::Filterable | protected | 
  | m_hasBeenInitialized | bio::VirtualBase | protected | 
  | m_id | bio::physical::Identifiable< StandardDimension > |  | 
  | bio::m_object | bio::physical::Class< Atom > | protected | 
  | Class< Reactants >::bio::m_object | bio::physical::Class< T > | protected | 
  | Class< Reactants >::Identifiable< StandardDimension >::m_object | bio::physical::Class< Identifiable< StandardDimension > > | protected | 
  | Class< Reactants >::bio::log::Writer::bio::m_object | bio::physical::Class< Filterable > | protected | 
  | Class< Reactants >::bio::log::Writer::Class< Writer >::m_object | bio::physical::Class< Writer > | protected | 
  | LinearMotif< Substance * >::Class< LinearMotif< Substance * > >::bio::Class< LinearMotif< Substance * > >::m_object | bio::physical::Class< T > | protected | 
  | LinearMotif< Substance * >::UnorderedMotif< Substance * >::bio::m_object | bio::physical::Class< T > | protected | 
  | m_perspective | bio::chemical::LinearMotif< Substance * > |  | 
  | bio::m_signal | bio::physical::Wave | protected | 
  | Class< Reactants >::bio::m_signal | bio::physical::Wave | protected | 
  | LinearMotif< Substance * >::bio::Class< LinearMotif< Substance * > >::Class< LinearMotif< Substance * > >::Class< LinearMotif< Substance * > >::Class< LinearMotif< Substance * > >::m_signal | bio::physical::Wave | protected | 
  | LinearMotif< Substance * >::UnorderedMotif< Substance * >::bio::m_signal | bio::physical::Wave | protected | 
  | bio::m_symmetry | bio::physical::Wave | protected | 
  | Class< Reactants >::bio::m_symmetry | bio::physical::Wave | protected | 
  | LinearMotif< Substance * >::bio::Class< LinearMotif< Substance * > >::Class< LinearMotif< Substance * > >::Class< LinearMotif< Substance * > >::Class< LinearMotif< Substance * > >::m_symmetry | bio::physical::Wave | protected | 
  | LinearMotif< Substance * >::UnorderedMotif< Substance * >::bio::m_symmetry | bio::physical::Wave | protected | 
  | Modulate(Wave *signal) | bio::physical::Wave | virtual | 
  | Observer(Perspective *perspective=NULL) | bio::physical::Observer< Perspective< StandardDimension > > | inlineexplicit | 
  | Observer(const Observer &other) | bio::physical::Observer< Perspective< StandardDimension > > | inline | 
  | operator Atom *() | bio::physical::Class< Atom > | inlinevirtual | 
  | operator Filterable *() | bio::physical::Class< Filterable > | inlinevirtual | 
  | operator Identifiable< StandardDimension > *() | bio::physical::Class< Identifiable< StandardDimension > > | inlinevirtual | 
  | operator Substances() | bio::chemical::Reactants |  | 
  | operator T() | bio::chemical::Atom | inline | 
  | operator T*() | bio::physical::Class< T > | inlinevirtual | 
  | bio::operator Wave *() | bio::physical::Class< Atom > | inlinevirtual | 
  | Class< Reactants >::bio::operator Wave *() | bio::physical::Class< T > | inlinevirtual | 
  | Class< Reactants >::Identifiable< StandardDimension >::operator Wave *() | bio::physical::Class< Identifiable< StandardDimension > > | inlinevirtual | 
  | Class< Reactants >::bio::log::Writer::bio::operator Wave *() | bio::physical::Class< Filterable > | inlinevirtual | 
  | Class< Reactants >::bio::log::Writer::Class< Writer >::operator Wave *() | bio::physical::Class< Writer > | inlinevirtual | 
  | operator Writer *() | bio::physical::Class< Writer > | inlinevirtual | 
  | operator*(Wave *signal) | bio::physical::Wave | virtual | 
  | operator*() | bio::physical::Wave | virtual | 
  | operator*() const | bio::physical::Wave | virtual | 
  | operator+(const Wave *other) | bio::physical::Wave | virtual | 
  | operator-(const Wave *other) | bio::physical::Wave | virtual | 
  | operator|(Symmetry *symmetry) | bio::physical::Wave | virtual | 
  | Class< Reactants >::perspective | bio::chemical::Class< Reactants > |  | 
  | LinearMotif< Substance * >::Class< LinearMotif< Substance * > >::perspective | bio::chemical::Class< LinearMotif< Substance * > > |  | 
  | LinearMotif< Substance * >::UnorderedMotif< Substance * >::perspective | bio::chemical::Class< UnorderedMotif< Substance * > > |  | 
  | Perspective typedef | bio::physical::Observer< Perspective< StandardDimension > > |  | 
  | Reactants(Substances &substances) | bio::chemical::Reactants |  | 
  | RegisterProperties(const Properties properties) | bio::chemical::Elementary< LinearMotif< Substance * > > | inline | 
  | bio::Reify(physical::Symmetry *symmetry) | bio::chemical::Atom | virtual | 
  | Class< Reactants >::bio::log::Writer::Reify(Symmetry *symmetry) | bio::physical::Filterable | virtual | 
  | Remove(const T t) | bio::chemical::UnorderedStructureInterface | inline | 
  | RemoveImplementation(const Substance * content) | bio::chemical::UnorderedMotif< Substance * > | inlinevirtual | 
  | SetFilter(Filter filter) | bio::physical::Filterable | virtual | 
  | SetLogEngine(Engine *logEngine) | bio::log::Writer | virtual | 
  | SetPerspective(Perspective *perspective) | bio::physical::Observer< Perspective< StandardDimension > > | inlinevirtual | 
  | bio::Spin() const | bio::chemical::Atom | virtual | 
  | Class< Reactants >::bio::log::Writer::Spin() const | bio::physical::Filterable | virtual | 
  | Structure() | bio::chemical::Structure |  | 
  | ThreadSafe() | bio::ThreadSafe |  | 
  | ThreadSafe(const ThreadSafe &toCopy) | bio::ThreadSafe |  | 
  | UnlockThread() const | bio::ThreadSafe |  | 
  | UnorderedMotif(const Contents *contents) | bio::chemical::UnorderedMotif< Substance * > | inline | 
  | UnorderedMotif(const UnorderedMotif< Substance * > *toCopy) | bio::chemical::UnorderedMotif< Substance * > | inline | 
  | UnorderedStructureInterface() | bio::chemical::UnorderedStructureInterface | inline | 
  | VirtualBase() | bio::VirtualBase | protected | 
  | bio::Wave(Symmetry *symmetry=NULL) | bio::physical::Wave |  | 
  | Class< Reactants >::bio::Wave(Symmetry *symmetry=NULL) | bio::physical::Wave |  | 
  | LinearMotif< Substance * >::bio::Class< LinearMotif< Substance * > >::Class< LinearMotif< Substance * > >::Class< LinearMotif< Substance * > >::Class< LinearMotif< Substance * > >::Wave(Symmetry *symmetry=NULL) | bio::physical::Wave |  | 
  | LinearMotif< Substance * >::UnorderedMotif< Substance * >::bio::Wave(Symmetry *symmetry=NULL) | bio::physical::Wave |  | 
  | Writer(Engine *logEngine, Filter logFilter) | bio::log::Writer |  | 
  | ~AbstractMotif() | bio::chemical::AbstractMotif | virtual | 
  | ~Atom() | bio::chemical::Atom | virtual | 
  | bio::~Class() | bio::physical::Class< Atom > | inlinevirtual | 
  | Class< Reactants >::bio::~Class() | bio::physical::Class< T > | inlinevirtual | 
  | Class< Reactants >::Identifiable< StandardDimension >::~Class() | bio::physical::Class< Identifiable< StandardDimension > > | inlinevirtual | 
  | Class< Reactants >::bio::log::Writer::bio::~Class() | bio::physical::Class< Filterable > | inlinevirtual | 
  | Class< Reactants >::bio::log::Writer::Class< Writer >::~Class() | bio::physical::Class< Writer > | inlinevirtual | 
  | ~Elementary() | bio::chemical::Elementary< LinearMotif< Substance * > > | inlinevirtual | 
  | ~Filterable() | bio::physical::Filterable | virtual | 
  | ~LinearMotif() | bio::chemical::LinearMotif< Substance * > | inlinevirtual | 
  | ~LinearStructureInterface() | bio::chemical::LinearStructureInterface | inlinevirtual | 
  | ~Observer() | bio::physical::Observer< Perspective< StandardDimension > > | inlinevirtual | 
  | ~Reactants() | bio::chemical::Reactants | virtual | 
  | ~Structure() | bio::chemical::Structure | virtual | 
  | ~ThreadSafe() | bio::ThreadSafe | virtual | 
  | ~UnorderedMotif() | bio::chemical::UnorderedMotif< Substance * > | inlinevirtual | 
  | ~UnorderedStructureInterface() | bio::chemical::UnorderedStructureInterface | inlinevirtual | 
  | ~VirtualBase() | bio::VirtualBase | protectedvirtual | 
  | ~Wave() | bio::physical::Wave | virtual | 
  | ~Writer() | bio::log::Writer | virtual |