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Showing content from http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/doxyhtml/exon__number__assignment_8cpp_source.html below:

NCBI C++ ToolKit: src/objtools/writers/exon_number_assignment.cpp Source File

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83  unsigned int

exonNumber = 1;

84  auto

recordFrom = gtfRecord.SeqStart();

85  auto

recordTo = gtfRecord.SeqStop();

86  for

(

const auto

& pExonLocation:

location

.GetPacked_int().Get()) {

87  auto

exonFrom = pExonLocation->GetFrom();

88  auto

exonTo = pExonLocation->GetTo();

89  if

(recordFrom >= exonFrom && recordTo <= exonTo) {

103  return

xGetIndexInLocation(gtfRecord, mCdsLoc);

105  return

xGetIndexInLocation(gtfRecord, mRnaLoc);

113  auto

exonNumber = CdsGetExonNumberFor(gtfRecord);

115

gtfRecord.SetExonNumber(exonNumber);

unsigned int CdsGetExonNumberFor(const CGtfRecord &) const

void xInitialize(CMappedFeat cdsMf)

bool CdsNeedsExonNumbers() const

void AssignExonNumberTo(CGtfRecord &gtfRecord) const

unsigned xGetIndexInLocation(const CGtfRecord &, const CSeq_loc &) const

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

static const char location[]

void ChangeToPackedInt(void)

Works only if location is currently an interval, point, packed-int (handled trivially),...

virtual void Assign(const CSerialObject &source, ESerialRecursionMode how=eRecursive)

Override Assign() to incorporate cache invalidation.

CMappedFeat GetBestMrnaForCds(const CMappedFeat &cds_feat, CFeatTree *feat_tree=0, const SAnnotSelector *base_sel=0)

const CSeq_loc & GetLocation(void) const

#define END_NCBI_SCOPE

End previously defined NCBI scope.

#define BEGIN_NCBI_SCOPE

Define ncbi namespace.

virtual void Reset(void)

Reset the whole object.

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