RNaseDB Class Reference

Database for enzymes that digest RNA (RNases) More...

#include <OpenMS/CHEMISTRY/RNaseDB.h>

Inheritance diagram for RNaseDB:

Collaboration diagram for RNaseDB:

Protected Member Functions
	RNaseDB ()
	constructor More...
Protected Member Functions inherited from DigestionEnzymeDB< DigestionEnzymeRNA, RNaseDB >
DigestionEnzymeDB &	operator= (const DigestionEnzymeDB &enzymes_db)=delete
	assignment operator More...
void	readEnzymesFromFile_ (const String &filename)
	reads enzymes from the given file More...
const DigestionEnzymeRNA *	parseEnzyme_ (Map< String, String > &values) const
	parses an enzyme, given the key/value pairs from an XML file More...
void	addEnzyme_ (const DigestionEnzymeRNA *enzyme)
	add to internal data; also update indices for search by name and regex More...
	DigestionEnzymeDB (const String &db_file="")
	DigestionEnzymeDB (const DigestionEnzymeDB &enzymes_db)=delete
	copy constructor More...

Friends
class	DigestionEnzymeDB< DigestionEnzymeRNA, RNaseDB >

Additional Inherited Members
Public Types inherited from DigestionEnzymeDB< DigestionEnzymeRNA, RNaseDB >
typedef std::set< const DigestionEnzymeRNA * >::const_iterator	ConstEnzymeIterator
typedef std::set< const DigestionEnzymeRNA * >::iterator	EnzymeIterator
Public Member Functions inherited from DigestionEnzymeDB< DigestionEnzymeRNA, RNaseDB >
virtual	~DigestionEnzymeDB ()
	destructor More...
const DigestionEnzymeRNA *	getEnzyme (const String &name) const
const DigestionEnzymeRNA *	getEnzymeByRegEx (const String &cleavage_regex) const
void	getAllNames (std::vector< String > &all_names) const
	returns all the enzyme names (does NOT include synonym names) More...
bool	hasEnzyme (const String &name) const
	returns true if the db contains a enzyme with the given name (supports synonym names) More...
bool	hasEnzyme (const DigestionEnzymeRNA *enzyme) const
	returns true if the db contains the enzyme of the given pointer More...
bool	hasRegEx (const String &cleavage_regex) const
	returns true if the db contains a enzyme with the given regex More...
ConstEnzymeIterator	beginEnzyme () const
ConstEnzymeIterator	endEnzyme () const
Static Public Member Functions inherited from DigestionEnzymeDB< DigestionEnzymeRNA, RNaseDB >
static RNaseDB *	getInstance ()
	this member function serves as a replacement of the constructor More...
Protected Attributes inherited from DigestionEnzymeDB< DigestionEnzymeRNA, RNaseDB >
Map< String, const DigestionEnzymeRNA * >	enzyme_names_
	index by names More...
Map< String, const DigestionEnzymeRNA * >	enzyme_regex_
	index by regex More...
std::set< const DigestionEnzymeRNA * >	const_enzymes_
	set of enzymes More...

Detailed Description

Database for enzymes that digest RNA (RNases)

The enzymes stored in this DB are defined in an XML file under "share/CHEMISTRY/Enzymes_RNA.xml".

Constructor & Destructor Documentation

RNaseDB()

RNaseDB ( )

protected

constructor

Friends And Related Function Documentation

DigestionEnzymeDB< DigestionEnzymeRNA, RNaseDB >

friend class DigestionEnzymeDB< DigestionEnzymeRNA, RNaseDB >

friend