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Showing content from http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/doxyhtml/transl__note_8cpp_source.html below:

NCBI C++ ToolKit: src/misc/discrepancy/transl_note.cpp Source File

51 static const string

TRANSL_NOTE(

"TAA stop codon is completed by the addition of 3' A residues to the mRNA"

);

62 if

(

data

.IsCdregion() &&

data

.GetCdregion().IsSetCode_break()) {

64 if

((*code_break)->IsSetLoc() && (*code_break)->IsSetAa())

66 int

length = (*code_break)->GetLoc().GetTotalRange().GetLength();

69

&& stop_pos == feature_stop)

72 if

((*code_break)->GetAa().IsNcbieaa())

74

aa = (*code_break)->GetAa().GetNcbieaa();

76 else if

((*code_break)->GetAa().IsNcbi8aa())

78

aa = (*code_break)->GetAa().GetNcbi8aa();

79

vector<char>

(1, aa);

84 else if

((*code_break)->GetAa().IsNcbistdaa())

86

aa = (*code_break)->GetAa().GetNcbistdaa();

87

vector<char>

(1, aa);

94 result

.m_hasException =

true

;

109 for

(

auto

& feat :

context

.GetFeat()) {

112

m_Objs[

"[n] feature[s] [has] a translation exception but no note"

].Add(*

context

.SeqFeatObjRef(feat));

122 for

(

auto

& feat :

context

.GetFeat()) {

125

m_Objs[

"[n] feature[s] [has] a note but not translation exception"

].Add(*

context

.SeqFeatObjRef(feat));

User-defined methods of the data storage class.

@ eExtreme_Biological

5' and 3'

User-defined methods of the data storage class.

static SIZE_TYPE Convert(const CTempString &src, TCoding src_coding, TSeqPos pos, TSeqPos length, string &dst, TCoding dst_coding)

namespace ncbi::objects::

#define DISCREPANCY_CASE(name, type, group, descr)

unsigned int TSeqPos

Type for sequence locations and lengths.

TSeqPos GetStop(ESeqLocExtremes ext) const

#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.

static SIZE_TYPE Find(const CTempString str, const CTempString pattern, ECase use_case=eCase, EDirection direction=eForwardSearch, SIZE_TYPE occurrence=0)

Find the pattern in the string.

bool IsSetComment(void) const

Check if a value has been assigned to Comment data member.

bool IsSetData(void) const

the specific data Check if a value has been assigned to Data data member.

const TLocation & GetLocation(void) const

Get the Location member data.

const TData & GetData(void) const

Get the Data member data.

bool CanGetData(void) const

Check if it is safe to call GetData method.

const TComment & GetComment(void) const

Get the Comment member data.

bool IsSetLocation(void) const

feature made from Check if a value has been assigned to Location data member.

Utility macros and typedefs for exploring NCBI objects from seqfeat.asn.

#define FOR_EACH_CODEBREAK_ON_CDREGION(Itr, Var)

FOR_EACH_CODEBREAK_ON_CDREGION EDIT_EACH_CODEBREAK_ON_CDREGION.

static CFeatureInspectResults InspectSeqFeat(const CSeq_feat &obj)

static CS_CONTEXT * context

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