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NCBI C++ ToolKit: include/objects/general/Dbtag.hpp Source File

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39 #ifndef OBJECTS_GENERAL_DBTAG_HPP 40 #define OBJECTS_GENERAL_DBTAG_HPP 239

eDbtagType_NCBIOrtholog

261 bool

Match(

const CDbtag

& dbt2)

const

;

264 bool

SetAsMatchingTo(

const CDbtag

& dbt2);

284 bool

IsApproved(EIsRefseq refseq = eIsRefseq_No, EIsSource is_source = eIsSource_No, EIsEstOrGss is_est_or_gss = eIsEstOrGss_No )

const

;

287 const char

* IsApprovedNoCase(EIsRefseq refseq = eIsRefseq_No, EIsSource is_source = eIsSource_No)

const

;

289 bool

IsApproved(TDbtagGroup group)

const

;

292 bool

IsSkippable(

void

)

const

;

295

EDbtagType GetType(

void

)

const

;

298 bool

GetDBFlags (

bool

& is_refseq,

bool

& is_src,

string

& correct_caps)

const

;

300

TDbtagGroup GetDBFlags (

string

& correct_caps)

const

;

303 void

InvalidateType(

void

);

320 string GetUrl

(

const string

&taxname)

const

;

334 const string

& species,

335 const string

& subspecies =

kEmptyStr

)

const

;

361

: m_Type(eDbtagType_bad)

Dbtag is generalized for tagging eg.

static bool x_LooksLikeAccession(const string &tag, int &out_num_alpha, int &out_num_digit, int &out_num_unscr)

string GetUrl(TTaxId taxid) const

string GetUrl(void) const

string GetUrl(const string &taxname) const

int TDbtagGroup

holds bitwise OR of "EDbtagGroup"

@ eDbtagType_EnsemblGenomes_Gn

@ eDbtagType_EnsemblGenomes_Tr

@ eDbtagType_EnsemblRapid

@ eDbtagType_AceView_WormGenes

@ eDbtagType_UniProt_SwissProt

@ eDbtagType_PeptideAtlas

@ eDbtagType_RBGE_herbarium

@ eDbtagType_ApiDB_ToxoDB

@ eDbtagType_AllianceGenome

@ eDbtagType_PiroplasmaDB

@ eDbtagType_EnsemblGenomes

@ eDbtagType_UniProt_TrEMBL

@ eDbtagType_ApiDB_CryptoDB

@ eDbtagType_MicrosporidiaDB

@ eDbtagType_ApiDB_PlasmoDB

@ eDbtagType_ATCC_in_host

string GetUrl(const string &genus, const string &species, const string &subspecies=kEmptyStr) const

SStrictId_Tax::TId TTaxId

Taxon id type.

string GetLabel(const CSeq_id &id)

sequence::ECompare Compare(const CSeq_loc &loc1, const CSeq_loc &loc2, CScope *scope)

Returns the sequence::ECompare containment relationship between CSeq_locs.

#define END_NCBI_SCOPE

End previously defined NCBI scope.

#define BEGIN_NCBI_SCOPE

Define ncbi namespace.

#define NCBI_GENERAL_EXPORT

static const char label[]

CDbtag_Base & operator=(const CDbtag_Base &)

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