Implementation of DBSequenceType from the mzIdentML schema. More...

#include <IdentData.hpp>

Inheritance diagram for pwiz::identdata::DBSequence:

Public Member Functions
	DBSequence (const std::string id_="", const std::string name_="")
bool	empty () const
	returns true iff the element contains no params or param groups
Public Member Functions inherited from pwiz::identdata::IdentifiableParamContainer
	IdentifiableParamContainer (const std::string &id_="", const std::string &name_="")
virtual	~IdentifiableParamContainer ()
Public Member Functions inherited from pwiz::data::ParamContainer
CVParam	cvParam (CVID cvid) const
	finds cvid in the container:
CVParam	cvParamChild (CVID cvid) const
	finds child of cvid in the container:
std::vector< CVParam >	cvParamChildren (CVID cvid) const
	finds all children of cvid in the container:
bool	hasCVParam (CVID cvid) const
	returns true iff cvParams contains exact cvid (recursive)
bool	hasCVParamChild (CVID cvid) const
	returns true iff cvParams contains a child (is_a) of cvid (recursive)
UserParam	userParam (const std::string &) const
	finds UserParam with specified name
void	set (CVID cvid, const std::string &value="", CVID units=CVID_Unknown)
	set/add a CVParam (not recursive)
void	set (CVID cvid, double value, CVID units=CVID_Unknown)
	set/add a CVParam (not recursive)
void	set (CVID cvid, int value, CVID units=CVID_Unknown)
	set/add a CVParam (not recursive)
template<typename value_type >
void	set (CVID cvid, value_type value, CVID units=CVID_Unknown)
	set/add a CVParam (not recursive)
void	clear ()
	clears the collections
bool	operator== (const ParamContainer &that) const
	returns true iff this and that have the exact same cvParams and userParams
bool	operator!= (const ParamContainer &that) const
	returns !(this==that)
template<>
void	set (CVID cvid, bool value, CVID units)
	special case for bool (outside the class for gcc 3.4, and inline for msvc)

Public Attributes
int	length
std::string	accession
SearchDatabasePtr	searchDatabasePtr
std::string	seq
Public Attributes inherited from pwiz::identdata::IdentifiableParamContainer
std::string	id
std::string	name
Public Attributes inherited from pwiz::data::ParamContainer
std::vector< ParamGroupPtr >	paramGroupPtrs
	a collection of references to ParamGroups
std::vector< CVParam >	cvParams
	a collection of controlled vocabulary terms
std::vector< UserParam >	userParams
	a collection of uncontrolled user terms

Detailed Description

Implementation of DBSequenceType from the mzIdentML schema.

A database sequence from the specified SearchDatabase (nucleic acid or amino acid). If the sequence is nucleic acid, the source nucleic acid sequence should be given in the seq attribute rather than a translated sequence.

Definition at line 296 of file IdentData.hpp.