Representation of controlled vocabulary term list. More...

#include <OpenMS/METADATA/CVTermList.h>

Inheritance diagram for CVTermList:

Collaboration diagram for CVTermList:

Public Member Functions
	CVTermList ()=default
	Defaults constructor. More...

	CVTermList (const CVTermList &)=default
	Copy constructor. More...

	CVTermList (CVTermList &&) noexcept
	Move constructor. More...

virtual	~CVTermList ()
	Destructor. More...

CVTermList &	operator= (const CVTermList &rhs) &=default
	Assignment operator. More...

CVTermList &	operator= (CVTermList &&) &=default
	Move assignment operator. More...

Accessors
void	setCVTerms (const std::vector< CVTerm > &terms)
	sets the CV terms More...

void	replaceCVTerm (const CVTerm &cv_term)
	replaces the specified CV term More...

void	replaceCVTerms (const std::vector< CVTerm > &cv_terms, const String &accession)
	replaces the specified CV terms using the given accession number More...

void	replaceCVTerms (const std::map< String, std::vector< CVTerm > > &cv_term_map)
	replaces all cv terms with a map (can be obtained via getCVTerms) More...

void	consumeCVTerms (const std::map< String, std::vector< CVTerm > > &cv_term_map)
	merges the given map into the member map, no duplicate checking More...

const std::map< String, std::vector< CVTerm > > &	getCVTerms () const
	returns the accession string of the term More...

void	addCVTerm (const CVTerm &term)
	adds a CV term More...

Public Member Functions inherited from MetaInfoInterface
	MetaInfoInterface ()
	Constructor. More...

	MetaInfoInterface (const MetaInfoInterface &rhs)
	Copy constructor. More...

	MetaInfoInterface (MetaInfoInterface &&) noexcept
	Move constructor. More...

	~MetaInfoInterface ()
	Destructor. More...

MetaInfoInterface &	operator= (const MetaInfoInterface &rhs)
	Assignment operator. More...

MetaInfoInterface &	operator= (MetaInfoInterface &&) noexcept
	Move assignment operator. More...

void	swap (MetaInfoInterface &rhs)
	Swap contents. More...

bool	operator== (const MetaInfoInterface &rhs) const
	Equality operator. More...

bool	operator!= (const MetaInfoInterface &rhs) const
	Equality operator. More...

const DataValue &	getMetaValue (const String &name) const
	Returns the value corresponding to a string, or DataValue::EMPTY if not found. More...

DataValue	getMetaValue (const String &name, const DataValue &default_value) const
	Returns the value corresponding to a string, or a default value (e.g.: DataValue::EMPTY) if not found. More...

const DataValue &	getMetaValue (UInt index) const
	Returns the value corresponding to the index, or DataValue::EMPTY if not found. More...

DataValue	getMetaValue (UInt index, const DataValue &default_value) const
	Returns the value corresponding to the index, or a default value (e.g.: DataValue::EMPTY) if not found. More...

bool	metaValueExists (const String &name) const
	Returns whether an entry with the given name exists. More...

bool	metaValueExists (UInt index) const
	Returns whether an entry with the given index exists. More...

void	setMetaValue (const String &name, const DataValue &value)
	Sets the DataValue corresponding to a name. More...

void	setMetaValue (UInt index, const DataValue &value)
	Sets the DataValue corresponding to an index. More...

void	removeMetaValue (const String &name)
	Removes the DataValue corresponding to `name` if it exists. More...

void	removeMetaValue (UInt index)
	Removes the DataValue corresponding to `index` if it exists. More...

void	addMetaValues (const MetaInfoInterface &from)
	function to copy all meta values from one object to this one More...

void	getKeys (std::vector< String > &keys) const
	Fills the given vector with a list of all keys for which a value is set. More...

void	getKeys (std::vector< UInt > &keys) const
	Fills the given vector with a list of all keys for which a value is set. More...

bool	isMetaEmpty () const
	Returns if the MetaInfo is empty. More...

void	clearMetaInfo ()
	Removes all meta values. More...

Predicates
checks whether the spellings of the CV terms stored are correct corrects the CVTerm names, according to the loaded CV
std::map< String, std::vector< CVTerm > >	cv_terms_

bool	operator== (const CVTermList &cv_term_list) const
	equality operator More...

bool	operator!= (const CVTermList &cv_term_list) const
	inequality operator More...

bool	hasCVTerm (const String &accession) const
	checks whether the term has a value More...

bool	empty () const
	return true if no terms are available More...

Additional Inherited Members
Static Public Member Functions inherited from MetaInfoInterface
static MetaInfoRegistry &	metaRegistry ()
	Returns a reference to the MetaInfoRegistry. More...

Protected Member Functions inherited from MetaInfoInterface
void	createIfNotExists_ ()
	Creates the MetaInfo object if it does not exist. More...

Protected Attributes inherited from MetaInfoInterface
MetaInfo *	meta_
	Pointer to the MetaInfo object (0 by default) More...

Detailed Description

Representation of controlled vocabulary term list.

This class should be used to inherit from, to allow to add an arbitrary number of CV terms to the inherited class Representation of a CV term used by CVMappings

Constructor & Destructor Documentation

◆ CVTermList() [1/3]

CVTermList ( )

default

Defaults constructor.

◆ CVTermList() [2/3]

CVTermList ( const CVTermList & )

default

Copy constructor.

◆ CVTermList() [3/3]

CVTermList ( CVTermList && )

noexcept

Move constructor.

◆ ~CVTermList()

virtual ~CVTermList ( )

virtual

Destructor.

Member Function Documentation

◆ addCVTerm()

void addCVTerm ( const CVTerm & term )

adds a CV term

◆ consumeCVTerms()

void consumeCVTerms ( const std::map< String, std::vector< CVTerm > > & cv_term_map )

merges the given map into the member map, no duplicate checking

◆ empty()

bool empty ( ) const

return true if no terms are available

checks whether the stored terms fulfill a given CVMappingRule TODO : implement

◆ getCVTerms()

const std::map<String, std::vector<CVTerm> >& getCVTerms ( ) const

returns the accession string of the term

◆ hasCVTerm()

bool hasCVTerm ( const String & accession ) const

checks whether the term has a value

◆ operator!=()

bool operator!= ( const CVTermList & cv_term_list ) const

inequality operator

◆ operator=() [1/2]

CVTermList& operator= ( const CVTermList & rhs ) &

default

Assignment operator.

◆ operator=() [2/2]

CVTermList& operator= ( CVTermList && ) &

default

Move assignment operator.

◆ operator==()

bool operator== ( const CVTermList & cv_term_list ) const

equality operator

Referenced by Contact::operator==(), Instrument::operator==(), PeptideCompound::operator==(), Prediction::operator==(), Protein::operator==(), and Publication::operator==().

◆ replaceCVTerm()

void replaceCVTerm ( const CVTerm & cv_term )

replaces the specified CV term

◆ replaceCVTerms() [1/2]

void replaceCVTerms ( const std::map< String, std::vector< CVTerm > > & cv_term_map )

replaces all cv terms with a map (can be obtained via getCVTerms)

◆ replaceCVTerms() [2/2]

void replaceCVTerms	(	const std::vector< CVTerm > &	cv_terms,
		const String &	accession
	)

replaces the specified CV terms using the given accession number

◆ setCVTerms()

void setCVTerms ( const std::vector< CVTerm > & terms )

sets the CV terms

Member Data Documentation

◆ cv_terms_

std::map<String, std::vector<CVTerm> > cv_terms_

protected

Public Member Functions

Predicates

Additional Inherited Members

Detailed Description

Constructor & Destructor Documentation

◆ CVTermList() [1/3]

◆ CVTermList() [2/3]

◆ CVTermList() [3/3]

◆ ~CVTermList()

Member Function Documentation

◆ addCVTerm()

◆ consumeCVTerms()

◆ empty()

◆ getCVTerms()

◆ hasCVTerm()

◆ operator!=()

◆ operator=() [1/2]

◆ operator=() [2/2]

◆ operator==()

◆ replaceCVTerm()

◆ replaceCVTerms() [1/2]

◆ replaceCVTerms() [2/2]

◆ setCVTerms()

Member Data Documentation

◆ cv_terms_