bpp::BppSequenceApplication Member List

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

appName_	bpp::BppApplication	protected
BppApplication(int argc, char *argv[], const std::string &name, bool verbose=true, int warningLevel=1)	bpp::BppApplication
BppSequenceApplication(int argc, char *argv[], const std::string &name)	bpp::BppSequenceApplication	inline
done()	bpp::BppApplication	virtual
getAlignmentsMap(std::shared_ptr< const Alphabet > &alphabet, bool changeGapsToUnknownCharacters=true, bool optionalData=false, const std::string &prefix="input.", const std::string &suffix="", bool suffixIsOptional=true) const	bpp::BppSequenceApplication	virtual
getAlphabet(const string &suffix="", bool suffixIsOptional=true, bool allowGeneric=false) const	bpp::BppSequenceApplication	virtual
getConstAlignmentsMap(std::shared_ptr< const Alphabet > &alphabet, bool changeGapsToUnknownCharacters=true, bool optionalData=false, const std::string &prefix="input.", const std::string &suffix="", bool suffixIsOptional=true) const	bpp::BppSequenceApplication	virtual
getGeneticCode(std::shared_ptr< const Alphabet > &alphabet, const string &suffix="", bool suffixIsOptional=true) const	bpp::BppSequenceApplication	virtual
getParam(const std::string &name) const	bpp::BppApplication	virtual
getParam(const std::string &name)	bpp::BppApplication	virtual
getParams() const	bpp::BppApplication	virtual
getParams()	bpp::BppApplication	virtual
getWarningLevel() const	bpp::BppApplication	virtual
help(const std::string &program) const	bpp::BppApplication	virtual
isVerbose() const	bpp::BppApplication	virtual
params_	bpp::BppApplication	protected
startTimer()	bpp::BppApplication	virtual
timerStarted_	bpp::BppApplication	protected
verbose_	bpp::BppApplication	protected
warn_	bpp::BppApplication	protected
~BppApplication()	bpp::BppApplication	virtual