Representation of a CV term. More...
#include <OpenMS/FORMAT/ControlledVocabulary.h>
Public Types | |
| enum | XRefType { XSD_STRING = 0, XSD_INTEGER, XSD_DECIMAL, XSD_NEGATIVE_INTEGER, XSD_POSITIVE_INTEGER, XSD_NON_NEGATIVE_INTEGER, XSD_NON_POSITIVE_INTEGER, XSD_BOOLEAN, XSD_DATE, XSD_ANYURI, NONE } |
| define xsd types allowed in cv term to specify their value-type More... | |
Public Member Functions | |
| CVTerm () | |
| Default constructor. More... | |
| CVTerm (const CVTerm &rhs) | |
| CVTerm & | operator= (const CVTerm &rhs) |
| String | toXMLString (const String &ref, const String &value=String("")) const |
| get mzidentml formatted string. i.e. a cvparam xml element, ref should be the name of the ControlledVocabulary (i.e. cv.name()) containing the CVTerm (e.g. PSI-MS for the psi-ms.obo - gets loaded in all cases like that??), value can be empty if not available More... | |
| String | toXMLString (const String &ref, const DataValue &value) const |
| get mzidentml formatted string. i.e. a cvparam xml element, ref should be the name of the ControlledVocabulary (i.e. cv.name()) containing the CVTerm (e.g. PSI-MS for the psi-ms.obo - gets loaded in all cases like that??), value can be empty if not available More... | |
Static Public Member Functions | |
| static String | getXRefTypeName (XRefType type) |
Public Attributes | |
| String | name |
| Text name. More... | |
| String | id |
| Identifier. More... | |
| std::set< String > | parents |
| The parent IDs. More... | |
| std::set< String > | children |
| The child IDs. More... | |
| bool | obsolete |
| Flag that indicates of the term is obsolete. More... | |
| String | description |
| Term description. More... | |
| StringList | synonyms |
| List of synonyms. More... | |
| StringList | unparsed |
| Unparsed lines from the definition file. More... | |
| XRefType | xref_type |
| xref value-type for the CV-term More... | |
| StringList | xref_binary |
| xref binary-data-type for the CV-term (list of all allowed data value types for the current binary data array) More... | |
| std::set< String > | units |
| unit accession ids, defined by relationship has units More... | |
Representation of a CV term.
| enum XRefType |
| CVTerm | ( | ) |
Default constructor.
Referenced by MzMLHandler< MapType >::handleCVParam_().
get mzidentml formatted string. i.e. a cvparam xml element, ref should be the name of the ControlledVocabulary (i.e. cv.name()) containing the CVTerm (e.g. PSI-MS for the psi-ms.obo - gets loaded in all cases like that??), value can be empty if not available
get mzidentml formatted string. i.e. a cvparam xml element, ref should be the name of the ControlledVocabulary (i.e. cv.name()) containing the CVTerm (e.g. PSI-MS for the psi-ms.obo - gets loaded in all cases like that??), value can be empty if not available
| std::set<String> children |
The child IDs.
| String description |
Term description.
| String id |
Identifier.
Referenced by MzMLHandler< MapType >::handleCVParam_(), MzMLHandler< MapType >::validateCV_(), MzMLHandler< MapType >::writeChromatogram_(), MzMLHandler< MapType >::writeCV_(), MzMLHandler< MapType >::writeHeader_(), MzMLHandler< MapType >::writeSoftware_(), MzMLHandler< MapType >::writeSourceFile_(), and MzMLHandler< MapType >::writeSpectrum_().
| String name |
Text name.
Referenced by MzMLHandler< MapType >::handleCVParam_(), MzMLHandler< MapType >::validateCV_(), MzMLHandler< MapType >::writeChromatogram_(), MzMLHandler< MapType >::writeCV_(), MzMLHandler< MapType >::writeHeader_(), MzMLHandler< MapType >::writeSoftware_(), MzMLHandler< MapType >::writeSourceFile_(), and MzMLHandler< MapType >::writeSpectrum_().
| bool obsolete |
Flag that indicates of the term is obsolete.
Referenced by MzMLHandler< MapType >::handleCVParam_().
| std::set<String> parents |
The parent IDs.
| StringList synonyms |
List of synonyms.
| std::set<String> units |
unit accession ids, defined by relationship has units
| StringList unparsed |
Unparsed lines from the definition file.
| StringList xref_binary |
xref binary-data-type for the CV-term (list of all allowed data value types for the current binary data array)
| XRefType xref_type |
xref value-type for the CV-term
Referenced by MzMLHandler< MapType >::handleCVParam_().
| OpenMS / TOPP release 1.11.1 | Documentation generated on Thu Nov 14 2013 11:19:30 using doxygen 1.8.5 |