bpp::MafSequence Member List

This is the complete list of members for bpp::MafSequence, including all inherited members.

AbstractCoreSequence(const std::string &name)	bpp::AbstractCoreSequence
AbstractCoreSequence(const std::string &name, const Comments &comments)	bpp::AbstractCoreSequence
AbstractCoreSequence()	bpp::AbstractCoreSequence
AbstractCoreSequence(const AbstractCoreSequence &s)	bpp::AbstractCoreSequence
AbstractCoreSequence(const CoreSequence &s)	bpp::AbstractCoreSequence
addAnnotation(SequenceAnnotation *anno)	bpp::SequenceWithAnnotation	virtual
addCoreSymbolListListener(CoreSymbolListListener< int > *listener)	bpp::SequenceWithAnnotation	virtual
addCoreSymbolListListener(CoreSymbolListListener< T > *listener)=0	bpp::SequenceWithAnnotation	pure virtual
addElement(const std::string &c)	bpp::SequenceWithAnnotation	virtual
addElement(size_t pos, const std::string &c)	bpp::SequenceWithAnnotation	virtual
addElement(const int &v)	bpp::SequenceWithAnnotation	virtual
addElement(size_t pos, const int &v)	bpp::SequenceWithAnnotation	virtual
addElement(const T &c)=0	bpp::SequenceWithAnnotation	pure virtual
addElement(size_t pos, const T &c)=0	bpp::SequenceWithAnnotation	pure virtual
addElement(const T &c)=0	bpp::SequenceWithAnnotation	pure virtual
addElement(size_t pos, const T &c)=0	bpp::SequenceWithAnnotation	pure virtual
addIntSymbolListListener(IntSymbolListListener *listener)	bpp::SequenceWithAnnotation
afterSequenceChanged(const IntSymbolListEditionEvent &event)	bpp::MafSequence	inlineprivatevirtual
bpp::SequenceWithAnnotation::afterSequenceChanged(const CoreSymbolListEditionEvent< T > &event)=0	bpp::SequenceWithAnnotation	protectedpure virtual
EdSymbolList< int >::afterSequenceChanged(const CoreSymbolListEditionEvent< int > &event)	EdSymbolList< int >	protectedvirtual
EdSymbolList< int >::afterSequenceChanged(const CoreSymbolListEditionEvent< T > &event)=0	EdSymbolList< int >	protectedpure virtual
afterSequenceDeleted(const IntSymbolListDeletionEvent &event)	bpp::MafSequence	inlineprivatevirtual
bpp::SequenceWithAnnotation::afterSequenceDeleted(const CoreSymbolListDeletionEvent< T > &event)=0	bpp::SequenceWithAnnotation	protectedpure virtual
EdSymbolList< int >::afterSequenceDeleted(const CoreSymbolListDeletionEvent< int > &event)	EdSymbolList< int >	protectedvirtual
EdSymbolList< int >::afterSequenceDeleted(const CoreSymbolListDeletionEvent< T > &event)=0	EdSymbolList< int >	protectedpure virtual
afterSequenceInserted(const IntSymbolListInsertionEvent &event)	bpp::MafSequence	inlineprivatevirtual
bpp::SequenceWithAnnotation::afterSequenceInserted(const CoreSymbolListInsertionEvent< T > &event)=0	bpp::SequenceWithAnnotation	protectedpure virtual
EdSymbolList< int >::afterSequenceInserted(const CoreSymbolListInsertionEvent< int > &event)	EdSymbolList< int >	protectedvirtual
EdSymbolList< int >::afterSequenceInserted(const CoreSymbolListInsertionEvent< T > &event)=0	EdSymbolList< int >	protectedpure virtual
afterSequenceSubstituted(const IntSymbolListSubstitutionEvent &event)	bpp::MafSequence	inlineprivatevirtual
bpp::SequenceWithAnnotation::afterSequenceSubstituted(const CoreSymbolListSubstitutionEvent< T > &event)=0	bpp::SequenceWithAnnotation	protectedpure virtual
EdSymbolList< int >::afterSequenceSubstituted(const CoreSymbolListSubstitutionEvent< int > &event)	EdSymbolList< int >	protectedvirtual
EdSymbolList< int >::afterSequenceSubstituted(const CoreSymbolListSubstitutionEvent< T > &event)=0	EdSymbolList< int >	protectedpure virtual
alphabet_	bpp::SequenceWithAnnotation	private
append(const Sequence &seq)	bpp::SequenceWithAnnotation	virtual
append(const std::vector< int > &content)	bpp::SequenceWithAnnotation	virtual
append(const std::vector< std::string > &content)	bpp::SequenceWithAnnotation	virtual
append(const std::string &content)	bpp::SequenceWithAnnotation	virtual
append(const Sequence &seq)	bpp::SequenceWithAnnotation	virtual
append(const std::vector< int > &content)	bpp::SequenceWithAnnotation	virtual
append(const std::vector< std::string > &content)	bpp::SequenceWithAnnotation	virtual
append(const std::string &content)	bpp::SequenceWithAnnotation	virtual
beforeSequenceChanged(const IntSymbolListEditionEvent &event)	bpp::MafSequence	inlineprivatevirtual
bpp::SequenceWithAnnotation::beforeSequenceChanged(const CoreSymbolListEditionEvent< T > &event)=0	bpp::SequenceWithAnnotation	protectedpure virtual
EdSymbolList< int >::beforeSequenceChanged(const CoreSymbolListEditionEvent< int > &event)	EdSymbolList< int >	protectedvirtual
EdSymbolList< int >::beforeSequenceChanged(const CoreSymbolListEditionEvent< T > &event)=0	EdSymbolList< int >	protectedpure virtual
beforeSequenceDeleted(const IntSymbolListDeletionEvent &event)	bpp::MafSequence	inlineprivatevirtual
bpp::SequenceWithAnnotation::beforeSequenceDeleted(const CoreSymbolListDeletionEvent< T > &event)=0	bpp::SequenceWithAnnotation	protectedpure virtual
EdSymbolList< int >::beforeSequenceDeleted(const CoreSymbolListDeletionEvent< int > &event)	EdSymbolList< int >	protectedvirtual
EdSymbolList< int >::beforeSequenceDeleted(const CoreSymbolListDeletionEvent< T > &event)=0	EdSymbolList< int >	protectedpure virtual
beforeSequenceInserted(const IntSymbolListInsertionEvent &event)	bpp::MafSequence	inlineprivatevirtual
bpp::SequenceWithAnnotation::beforeSequenceInserted(const CoreSymbolListInsertionEvent< T > &event)=0	bpp::SequenceWithAnnotation	protectedpure virtual
EdSymbolList< int >::beforeSequenceInserted(const CoreSymbolListInsertionEvent< int > &event)	EdSymbolList< int >	protectedvirtual
EdSymbolList< int >::beforeSequenceInserted(const CoreSymbolListInsertionEvent< T > &event)=0	EdSymbolList< int >	protectedpure virtual
beforeSequenceSubstituted(const IntSymbolListSubstitutionEvent &event)	bpp::MafSequence	inlineprivatevirtual
bpp::SequenceWithAnnotation::beforeSequenceSubstituted(const CoreSymbolListSubstitutionEvent< T > &event)=0	bpp::SequenceWithAnnotation	protectedpure virtual
EdSymbolList< int >::beforeSequenceSubstituted(const CoreSymbolListSubstitutionEvent< int > &event)	EdSymbolList< int >	protectedvirtual
EdSymbolList< int >::beforeSequenceSubstituted(const CoreSymbolListSubstitutionEvent< T > &event)=0	EdSymbolList< int >	protectedpure virtual
begin_	bpp::MafSequence	private
chromosome_	bpp::MafSequence	private
clearComments()	bpp::SequenceWithAnnotation	virtual
clone() const	bpp::MafSequence	inlinevirtual
cloneMeta() const	bpp::MafSequence	inline
Commentable()	bpp::Commentable
Commentable(const Comments &comments)	bpp::Commentable
Commentable(const Commentable &com)	bpp::Commentable
comments_	bpp::SequenceWithAnnotation	protected
content_	bpp::SequenceWithAnnotation	protected
CoreSequence()	bpp::CoreSequence
deleteElement(size_t pos)	bpp::SequenceWithAnnotation	virtual
deleteElement(size_t pos)=0	bpp::SequenceWithAnnotation	pure virtual
deleteElement(size_t pos)=0	bpp::SequenceWithAnnotation	pure virtual
deleteElements(size_t pos, size_t len)	bpp::SequenceWithAnnotation	virtual
deleteElements(size_t pos, size_t len)=0	bpp::SequenceWithAnnotation	pure virtual
deleteElements(size_t pos, size_t len)=0	bpp::SequenceWithAnnotation	pure virtual
EdIntSymbolList(const Alphabet *alpha)	bpp::EdIntSymbolList
EdIntSymbolList(const std::vector< std::string > &list, const Alphabet *alpha)	bpp::EdIntSymbolList
EdIntSymbolList(const std::vector< int > &list, const Alphabet *alpha)	bpp::EdIntSymbolList
EdIntSymbolList(const IntSymbolList &list)	bpp::EdIntSymbolList
EdIntSymbolList(const EdIntSymbolList &list)	bpp::EdIntSymbolList
EdSymbolList(const Alphabet *alpha)	EdSymbolList< int >	protected
EdSymbolList(const std::vector< int > &list, const Alphabet *alpha)	EdSymbolList< int >	protected
EdSymbolList(const CoreSymbolList< int > &list)	EdSymbolList< int >	protected
EdSymbolList(const EdSymbolList< int > &list)	EdSymbolList< int >	protected
fireAfterSequenceChanged(const CoreSymbolListEditionEvent< int > &event)	bpp::SequenceWithAnnotation	protected
fireAfterSequenceChanged(const CoreSymbolListEditionEvent< T > &event)=0	bpp::SequenceWithAnnotation	protectedpure virtual
EdSymbolList< int >::fireAfterSequenceChanged(const CoreSymbolListEditionEvent< int > &event)	EdSymbolList< int >	protected
EdSymbolList< int >::fireAfterSequenceChanged(const CoreSymbolListEditionEvent< T > &event)=0	EdSymbolList< int >	protectedpure virtual
fireAfterSequenceDeleted(const CoreSymbolListDeletionEvent< int > &event)	bpp::SequenceWithAnnotation	protected
fireAfterSequenceDeleted(const CoreSymbolListDeletionEvent< T > &event)=0	bpp::SequenceWithAnnotation	protectedpure virtual
EdSymbolList< int >::fireAfterSequenceDeleted(const CoreSymbolListDeletionEvent< int > &event)	EdSymbolList< int >	protected
EdSymbolList< int >::fireAfterSequenceDeleted(const CoreSymbolListDeletionEvent< T > &event)=0	EdSymbolList< int >	protectedpure virtual
fireAfterSequenceInserted(const CoreSymbolListInsertionEvent< int > &event)	bpp::SequenceWithAnnotation	protected
fireAfterSequenceInserted(const CoreSymbolListInsertionEvent< T > &event)=0	bpp::SequenceWithAnnotation	protectedpure virtual
EdSymbolList< int >::fireAfterSequenceInserted(const CoreSymbolListInsertionEvent< int > &event)	EdSymbolList< int >	protected
EdSymbolList< int >::fireAfterSequenceInserted(const CoreSymbolListInsertionEvent< T > &event)=0	EdSymbolList< int >	protectedpure virtual
fireAfterSequenceSubstituted(const CoreSymbolListSubstitutionEvent< int > &event)	bpp::SequenceWithAnnotation	protected
fireAfterSequenceSubstituted(const CoreSymbolListSubstitutionEvent< T > &event)=0	bpp::SequenceWithAnnotation	protectedpure virtual
EdSymbolList< int >::fireAfterSequenceSubstituted(const CoreSymbolListSubstitutionEvent< int > &event)	EdSymbolList< int >	protected
EdSymbolList< int >::fireAfterSequenceSubstituted(const CoreSymbolListSubstitutionEvent< T > &event)=0	EdSymbolList< int >	protectedpure virtual
fireBeforeSequenceChanged(const CoreSymbolListEditionEvent< int > &event)	bpp::SequenceWithAnnotation	protected
fireBeforeSequenceChanged(const CoreSymbolListEditionEvent< T > &event)=0	bpp::SequenceWithAnnotation	protectedpure virtual
EdSymbolList< int >::fireBeforeSequenceChanged(const CoreSymbolListEditionEvent< int > &event)	EdSymbolList< int >	protected
EdSymbolList< int >::fireBeforeSequenceChanged(const CoreSymbolListEditionEvent< T > &event)=0	EdSymbolList< int >	protectedpure virtual
fireBeforeSequenceDeleted(const CoreSymbolListDeletionEvent< int > &event)	bpp::SequenceWithAnnotation	protected
fireBeforeSequenceDeleted(const CoreSymbolListDeletionEvent< T > &event)=0	bpp::SequenceWithAnnotation	protectedpure virtual
EdSymbolList< int >::fireBeforeSequenceDeleted(const CoreSymbolListDeletionEvent< int > &event)	EdSymbolList< int >	protected
EdSymbolList< int >::fireBeforeSequenceDeleted(const CoreSymbolListDeletionEvent< T > &event)=0	EdSymbolList< int >	protectedpure virtual
fireBeforeSequenceInserted(const CoreSymbolListInsertionEvent< int > &event)	bpp::SequenceWithAnnotation	protected
fireBeforeSequenceInserted(const CoreSymbolListInsertionEvent< T > &event)=0	bpp::SequenceWithAnnotation	protectedpure virtual
EdSymbolList< int >::fireBeforeSequenceInserted(const CoreSymbolListInsertionEvent< int > &event)	EdSymbolList< int >	protected
EdSymbolList< int >::fireBeforeSequenceInserted(const CoreSymbolListInsertionEvent< T > &event)=0	EdSymbolList< int >	protectedpure virtual
fireBeforeSequenceSubstituted(const CoreSymbolListSubstitutionEvent< int > &event)	bpp::SequenceWithAnnotation	protected
fireBeforeSequenceSubstituted(const CoreSymbolListSubstitutionEvent< T > &event)=0	bpp::SequenceWithAnnotation	protectedpure virtual
EdSymbolList< int >::fireBeforeSequenceSubstituted(const CoreSymbolListSubstitutionEvent< int > &event)	EdSymbolList< int >	protected
EdSymbolList< int >::fireBeforeSequenceSubstituted(const CoreSymbolListSubstitutionEvent< T > &event)=0	EdSymbolList< int >	protectedpure virtual
getAlphabet() const=0	bpp::SequenceWithAnnotation	pure virtual
getAlphabet() const	bpp::SequenceWithAnnotation	virtual
getAnnotation(const std::string &type) const	bpp::SequenceWithAnnotation	virtual
getAnnotation(const std::string &type)	bpp::SequenceWithAnnotation	virtual
getAnnotationTypes() const	bpp::SequenceWithAnnotation	virtual
getChar(size_t pos) const	bpp::SequenceWithAnnotation	virtual
getChar(size_t pos) const	bpp::SequenceWithAnnotation	virtual
getChromosome() const	bpp::MafSequence	inline
getComments() const	bpp::SequenceWithAnnotation	virtual
getContent() const	bpp::SequenceWithAnnotation	virtual
getContent() const=0	bpp::SequenceWithAnnotation	pure virtual
getContent() const=0	bpp::SequenceWithAnnotation	pure virtual
getDescription() const	bpp::MafSequence	inline
getElement(size_t pos) const	bpp::SequenceWithAnnotation	virtual
getElement(size_t pos) const=0	bpp::SequenceWithAnnotation	pure virtual
getElement(size_t pos) const=0	bpp::SequenceWithAnnotation	pure virtual
getGenomicSize() const	bpp::MafSequence	inline
getListener(size_t i) const	bpp::SequenceWithAnnotation	virtual
getListener(size_t i)	bpp::SequenceWithAnnotation	virtual
getName() const	bpp::SequenceWithAnnotation	virtual
getNumberOfListeners() const	bpp::SequenceWithAnnotation	virtual
getRange(bool origin=true) const	bpp::MafSequence	inline
getSpecies() const	bpp::MafSequence	inline
getSrcSize() const	bpp::MafSequence	inline
getStateValueAt(size_t siteIndex, int state) const	bpp::SequenceWithAnnotation	virtual
getStateValueAt(size_t siteIndex, int state) const	bpp::SequenceWithAnnotation	virtual
getStrand() const	bpp::MafSequence	inline
getValue(size_t pos) const	bpp::SequenceWithAnnotation	virtual
getValue(size_t pos) const=0	bpp::SequenceWithAnnotation	pure virtual
getValue(size_t pos) const=0	bpp::SequenceWithAnnotation	pure virtual
hasAnnotation(const std::string &type) const	bpp::SequenceWithAnnotation	virtual
hasCoordinates() const	bpp::MafSequence	inline
hasCoordinates_	bpp::MafSequence	private
listeners_	bpp::SequenceWithAnnotation	protected
MafSequence(const Alphabet *alphabet=&AlphabetTools::DNA_ALPHABET)	bpp::MafSequence	inline
MafSequence(const std::string &name, const std::string &sequence, bool parseName=true, const Alphabet *alphabet=&AlphabetTools::DNA_ALPHABET)	bpp::MafSequence	inline
MafSequence(const std::string &name, const std::string &sequence, size_t begin, char strand, size_t srcSize, bool parseName=true, const Alphabet *alphabet=&AlphabetTools::DNA_ALPHABET)	bpp::MafSequence	inline
merge(const SequenceWithAnnotation &swa)	bpp::SequenceWithAnnotation	virtual
name_	bpp::SequenceWithAnnotation	private
operator()(size_t siteIndex, int state) const	bpp::SequenceWithAnnotation	virtual
operator()(size_t siteIndex, int state) const	bpp::SequenceWithAnnotation	virtual
operator=(const Sequence &s)	bpp::SequenceWithAnnotation
operator=(const SequenceWithAnnotation &s)	bpp::SequenceWithAnnotation
bpp::AbstractCoreSequence::operator=(const AbstractCoreSequence &s)	bpp::AbstractCoreSequence
bpp::AbstractCoreSequence::operator=(const CoreSequence &s)	bpp::AbstractCoreSequence
bpp::Commentable::operator=(const Commentable &com)	bpp::Commentable
bpp::EdIntSymbolList::operator=(const IntSymbolList &list)	bpp::EdIntSymbolList
bpp::EdIntSymbolList::operator=(const EdIntSymbolList &list)	bpp::EdIntSymbolList
EdSymbolList< int >::operator=(const CoreSymbolList< int > &list)	EdSymbolList< int >	protected
EdSymbolList< int >::operator=(const EdSymbolList &list)	EdSymbolList< int >	protected
SymbolList< int >::operator=(const SymbolList< int > &list)	SymbolList< int >
operator[](size_t pos) const	bpp::SequenceWithAnnotation	virtual
operator[](size_t pos)	bpp::SequenceWithAnnotation	virtual
operator[](size_t pos) const=0	bpp::SequenceWithAnnotation	pure virtual
operator[](size_t pos)=0	bpp::SequenceWithAnnotation	pure virtual
operator[](size_t pos) const=0	bpp::SequenceWithAnnotation	pure virtual
operator[](size_t pos)=0	bpp::SequenceWithAnnotation	pure virtual
propagateEvents(bool yn)	bpp::SequenceWithAnnotation	protectedvirtual
propagateEvents() const	bpp::SequenceWithAnnotation	protectedvirtual
propagateEvents_	bpp::SequenceWithAnnotation	private
removeCoordinates()	bpp::MafSequence	inline
removeCoreSymbolListListener(CoreSymbolListListener< int > *listener)	bpp::SequenceWithAnnotation	virtual
removeCoreSymbolListListener(CoreSymbolListListener< T > *listener)=0	bpp::SequenceWithAnnotation	pure virtual
SequenceWithAnnotation(const Alphabet *alpha)	bpp::SequenceWithAnnotation
SequenceWithAnnotation(const std::string &name, const std::string &sequence, const Alphabet *alpha)	bpp::SequenceWithAnnotation
SequenceWithAnnotation(const std::string &name, const std::string &sequence, const Comments &comments, const Alphabet *alpha)	bpp::SequenceWithAnnotation
SequenceWithAnnotation(const std::string &name, const std::vector< std::string > &sequence, const Alphabet *alpha)	bpp::SequenceWithAnnotation
SequenceWithAnnotation(const std::string &name, const std::vector< std::string > &sequence, const Comments &comments, const Alphabet *alpha)	bpp::SequenceWithAnnotation
SequenceWithAnnotation(const std::string &name, const std::vector< int > &sequence, const Alphabet *alpha)	bpp::SequenceWithAnnotation
SequenceWithAnnotation(const std::string &name, const std::vector< int > &sequence, const Comments &comments, const Alphabet *alpha)	bpp::SequenceWithAnnotation
SequenceWithAnnotation(const Sequence &s)	bpp::SequenceWithAnnotation
SequenceWithAnnotation(const SequenceWithAnnotation &s)	bpp::SequenceWithAnnotation
setChromosome(const std::string &chr)	bpp::MafSequence	inline
setComments(const Comments &comments)	bpp::SequenceWithAnnotation	virtual
setContent(const std::string &sequence)	bpp::SequenceWithAnnotation	virtual
setContent(const std::vector< std::string > &list)	bpp::SequenceWithAnnotation	virtual
setContent(const std::vector< int > &list)	bpp::SequenceWithAnnotation	virtual
setContent(const std::vector< T > &list)=0	bpp::SequenceWithAnnotation	pure virtual
setContent(const std::string &sequence)	bpp::SequenceWithAnnotation	virtual
setContent(const std::vector< std::string > &list)	bpp::SequenceWithAnnotation	virtual
setContent(const std::vector< int > &list)	bpp::SequenceWithAnnotation	virtual
setContent(const std::vector< T > &list)=0	bpp::SequenceWithAnnotation	pure virtual
setElement(size_t pos, const std::string &c)	bpp::SequenceWithAnnotation	virtual
setElement(size_t pos, const int &v)	bpp::SequenceWithAnnotation	virtual
setElement(size_t pos, const T &c)=0	bpp::SequenceWithAnnotation	pure virtual
setElement(size_t pos, const T &c)=0	bpp::SequenceWithAnnotation	pure virtual
setName(const std::string &name)	bpp::MafSequence	inlinevirtual
setSpecies(const std::string &species)	bpp::MafSequence	inline
setSrcSize(size_t srcSize)	bpp::MafSequence	inline
setStart(size_t begin)	bpp::MafSequence	inline
setStrand(char s)	bpp::MafSequence	inline
setToSizeL(size_t newSize)	bpp::SequenceWithAnnotation	virtual
setToSizeL(size_t newSize)	bpp::SequenceWithAnnotation	virtual
setToSizeR(size_t newSize)	bpp::SequenceWithAnnotation	virtual
setToSizeR(size_t newSize)	bpp::SequenceWithAnnotation	virtual
shuffle()	bpp::SequenceWithAnnotation	virtual
shuffle()=0	bpp::SequenceWithAnnotation	pure virtual
shuffle()=0	bpp::SequenceWithAnnotation	pure virtual
size() const=0	bpp::SequenceWithAnnotation	pure virtual
size() const	bpp::SequenceWithAnnotation	virtual
size_	bpp::MafSequence	private
species_	bpp::MafSequence	private
splitNameIntoSpeciesAndChromosome(const std::string &name, std::string &species, std::string &chr)	bpp::MafSequence	inlinestatic
srcSize_	bpp::MafSequence	private
start() const	bpp::MafSequence	inline
stop() const	bpp::MafSequence	inline
strand_	bpp::MafSequence	private
subSequence(size_t startAt, size_t length) const	bpp::MafSequence
SymbolList(const Alphabet *alpha)	SymbolList< int >
SymbolList(const std::vector< int > &list, const Alphabet *alpha)	SymbolList< int >
SymbolList(const SymbolList< int > &list)	SymbolList< int >
SymbolList(const CoreSymbolList< int > &list)	SymbolList< int >
toString() const=0	bpp::SequenceWithAnnotation	pure virtual
toString() const	bpp::SequenceWithAnnotation	virtual
~AbstractCoreSequence()	bpp::AbstractCoreSequence	virtual
~Clonable()=default	bpp::Clonable	virtual
~Commentable()	bpp::Commentable	virtual
~CoreSequence()	bpp::CoreSequence	virtual
~CoreSequenceSymbolList()	bpp::CoreSequenceSymbolList< class >	virtual
~CoreSymbolList()	bpp::CoreSymbolList< class >	virtual
~CruxSymbolList()	bpp::CruxSymbolList	virtual
~EdCoreSymbolList()	bpp::EdCoreSymbolList< class >	virtual
~EdIntSymbolList()	bpp::EdIntSymbolList
~EdSymbolList()	EdSymbolList< int >	protectedvirtual
~MafSequence()	bpp::MafSequence	inline
~Sequence()	bpp::Sequence	virtual
~SequenceWithAnnotation()	bpp::SequenceWithAnnotation	virtual
~SymbolList()	SymbolList< int >	virtual