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Showing content from http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/doxyhtml/Org__ref_8hpp_source.html below:

NCBI C++ ToolKit: include/objects/seqfeat/Org_ref.hpp Source File

37 #ifndef OBJECTS_SEQFEAT_ORG_REF_HPP 38 #define OBJECTS_SEQFEAT_ORG_REF_HPP 56

eOrgref_taxname = 0x0010,

57

eOrgref_common = 0x0040,

61

eOrgref_db_taxid = 0x0001,

62

eOrgref_db_all = (eOrgref_db | eOrgref_db_taxid),

66

eOrgref_orgname = 0x0008,

67

eOrgref_on_name = 0x0080,

68

eOrgref_on_attr = 0x1000,

69

eOrgref_on_attr_spec = 0x00010000,

70

eOrgref_on_attr_nofwd = 0x00040000,

71

eOrgref_on_attr_uncult= 0x00080000,

72

eOrgref_on_attr_all = (eOrgref_on_attr | eOrgref_on_attr_spec | eOrgref_on_attr_nofwd | eOrgref_on_attr_uncult),

73

eOrgref_on_mod = 0x0200,

74

eOrgref_on_mod_nom = 0x00020000,

75

eOrgref_on_mod_oldname= 0x00100000,

76

eOrgref_on_mod_tm = 0x00200000,

77

eOrgref_on_mod_all = (eOrgref_on_mod | eOrgref_on_mod_nom | eOrgref_on_mod_oldname | eOrgref_on_mod_tm),

78

eOrgref_on_lin = 0x0020,

79

eOrgref_on_gc = 0x0002,

80

eOrgref_on_mgc = 0x0004,

81

eOrgref_on_pgc = 0x0400,

82

eOrgref_on_div = 0x0100,

83

eOrgref_on_all = (eOrgref_orgname | eOrgref_on_name | eOrgref_on_attr_all | eOrgref_on_mod_all |

84

eOrgref_on_lin | eOrgref_on_gc | eOrgref_on_mgc | eOrgref_on_pgc | eOrgref_on_div),

86

89

eOrgref_all_but_syn = (eOrgref_all ^ eOrgref_syn),

90

eOrgref_all_but_spec = (eOrgref_all ^ eOrgref_on_attr_spec),

92

eOrgref_default = eOrgref_all

112 bool

IsSetLineage(

void

)

const

;

113 const string

& GetLineage(

void

)

const

;

115 bool

IsSetGcode(

void

)

const

;

118 bool

IsSetMgcode(

void

)

const

;

119 int

GetMgcode(

void

)

const

;

121 bool

IsSetPgcode(

void

)

const

;

122 int

GetPgcode(

void

)

const

;

124 bool

IsSetDivision(

void

)

const

;

125 const string

& GetDivision(

void

)

const

;

127 bool

IsSetOrgMod(

void

)

const

;

129 bool

IsVarietyValid(

const string

& variety)

const

;

130 bool

HasValidVariety()

const

;

131 bool

IsSubspeciesValid(

const string

& subspecies)

const

;

136 static const

vector<string>& GetTaxnameList();

137 bool

UpdateFromTable();

139 void

CleanForGenBank();

147 string

x_GetTaxnameAfterFirstTwoWords()

const

;

*** Org-ref *********************************************** * * Reference to an organism * defines on...

unsigned int fOrgref_parts

COrg_ref & operator=(const COrg_ref &value)

COrg_ref(const COrg_ref &value)

SStrictId_Tax::TId TTaxId

Taxon id type.

string GetLabel(const CSeq_id &id)

TTaxId GetTaxId(const CBioseq_Handle &handle)

return the tax-id associated with a given sequence.

#define END_NCBI_SCOPE

End previously defined NCBI scope.

#define BEGIN_NCBI_SCOPE

Define ncbi namespace.

#define NCBI_SEQFEAT_EXPORT

static const char label[]

const GenericPointer< typename T::ValueType > T2 value

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