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Showing content from http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/doxyhtml/contig__item_8cpp_source.html below:

NCBI C++ ToolKit: src/objtools/format/contig_item.cpp Source File

76 if

( !

ctx

.GetHandle().IsSetInst_Ext() ) {

81 const CSeq_ext

& const_ext =

ctx

.GetHandle().GetInst_Ext();

84 if

(

ctx

.IsSegmented()) {

88

}

else if

(

ctx

.IsDelta() ) {

91 data

.push_back(TLoc(&((*it)->SetLoc())));

97

flat_loc->SetFuzz(&lit.

GetFuzz

());

99 data

.push_back(TLoc(&*flat_loc));

User-defined methods of the data storage class.

void x_GatherInfo(CBioseqContext &ctx) override

EItem GetItemType() const override

void Format(IFormatter &formatter, IFlatTextOStream &text_os) const override

virtual void FormatContig(const CContigItem &contig, IFlatTextOStream &text_os)=0

Include a standard set of the NCBI C++ Toolkit most basic headers.

unsigned int TSeqPos

Type for sequence locations and lengths.

#define ITERATE(Type, Var, Cont)

ITERATE macro to sequence through container elements.

#define NON_CONST_ITERATE(Type, Var, Cont)

Non constant version of ITERATE macro.

#define END_NCBI_SCOPE

End previously defined NCBI scope.

#define END_SCOPE(ns)

End the previously defined scope.

#define BEGIN_NCBI_SCOPE

Define ncbi namespace.

#define BEGIN_SCOPE(ns)

Define a new scope.

list< CRef< CSeq_loc > > Tdata

const TSeg & GetSeg(void) const

Get the variant data.

TDelta & SetDelta(void)

Select the variant.

Tdata & Set(void)

Assign a value to data member.

TLength GetLength(void) const

Get the Length member data.

bool CanGetLength(void) const

Check if it is safe to call GetLength method.

const TFuzz & GetFuzz(void) const

Get the Fuzz member data.

bool IsSetFuzz(void) const

could be unsure Check if a value has been assigned to Fuzz data member.

list< CRef< CDelta_seq > > Tdata

const Tdata & Get(void) const

Get the member data.

list< CRef< CSeq_loc > > Tdata

double value_type

The numeric datatype used by the parser.

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