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NCBI C++ ToolKit: src/gui/widgets/seq_graphic/seqgraphic_utils.cpp Source File

objects::CScope& scope,

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static bool IsRefSeq(const objects::CBioseq_Handle &handle)

static bool GetFeatFetchDepth(const objects::CBioseq_Handle &handle, objects::CScope &scope, int &depth)

static bool IsChromosome(const objects::CBioseq_Handle &handle, objects::CScope &scope)

static bool IsMitochondrion(const objects::CBioseq_Handle &handle)

static bool IsmRNA(const objects::CBioseq_Handle &handle, objects::CScope &scope)

static bool IsSegSet(const objects::CBioseq_Handle &handle, objects::CScope &scope)

static bool IsPlastid(const objects::CBioseq_Handle &handle)

static unsigned char depth[2 *(256+1+29)+1]

#define ITERATE(Type, Var, Cont)

ITERATE macro to sequence through container elements.

static EAccessionInfo IdentifyAccession(const CTempString &accession, TParseFlags flags=fParse_AnyRaw)

Deduces information from a bare accession a la WHICH_db_accession; may report false negatives on prop...

CConstRef< CSeq_id > GetSeqId(void) const

EAccessionInfo

For IdentifyAccession (below)

@ eAcc_refseq_mrna_predicted

@ eAcc_refseq_prot_predicted

@ eAcc_refseq_ncrna_predicted

@ eAcc_refseq_wgs_intermed

const CSeq_id & GetId(const CSeq_loc &loc, CScope *scope)

If all CSeq_ids embedded in CSeq_loc refer to the same CBioseq, returns the first CSeq_id found,...

const CMolInfo * GetMolInfo(const CBioseq &bioseq)

Retrieve the MolInfo object for a given bioseq handle.

@ eGetId_Best

return the "best" gi (uses FindBestScore(), with CSeq_id::CalculateScore() as the score function

const CSeq_id_Handle & GetSeq_id_Handle(void) const

Get handle of id used to obtain this bioseq handle.

CConstRef< CSeq_id > GetSeqId(void) const

Get id which can be used to access this bioseq handle Throws an exception if none is available.

bool IsSetInst_Repr(void) const

TInst_Repr GetInst_Repr(void) const

#define END_NCBI_SCOPE

End previously defined NCBI scope.

#define BEGIN_NCBI_SCOPE

Define ncbi namespace.

TGenome GetGenome(void) const

Get the Genome member data.

bool IsStr(void) const

Check if variant Str is selected.

const TData & GetData(void) const

Get the Data member data.

bool IsInt(void) const

Check if variant Int is selected.

const TStr & GetStr(void) const

Get the variant data.

TInt GetInt(void) const

Get the variant data.

const TData & GetData(void) const

Get the Data member data.

const TLabel & GetLabel(void) const

Get the Label member data.

const TType & GetType(void) const

Get the Type member data.

vector< CRef< CUser_field > > TData

const TUser & GetUser(void) const

Get the variant data.

const TSource & GetSource(void) const

Get the variant data.

bool IsUser(void) const

Check if variant User is selected.

@ eRepr_seg

segmented sequence

@ eBiomol_pre_RNA

precursor RNA of any sort really

@ eBiomol_cRNA

viral RNA genome copy intermediate

@ eBiomol_snoRNA

small nucleolar RNA

@ e_User

user defined object

@ e_Source

source of materials, includes Org-ref

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