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Showing content from http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/doxyhtml/gff__record_8cpp_source.html below:

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

53

m_strSeqId(

"<FIX ME>"

54

m_strSource(

"<FIX ME>"

55

m_strType(

"<FIX ME>"

56

m_strStart(

"<FIX ME>"

57

m_strEnd(

"<FIX ME>"

58

m_strScore(

"<FIX ME>"

59

m_strStrand(

"<FIX ME>"

60

m_strPhase(

"<FIX ME>"

61

m_strAttributes(

"<FIX ME>"

)

75 switch

( pId->

Which

() ) {

117 const

vector< CRef< CGb_qual > >& quals = feature.

GetQual

();

118

vector< CRef< CGb_qual > >::const_iterator it = quals.begin();

119 while

( it != quals.end() ) {

120 if

( (*it)->CanGetQual() && (*it)->CanGetVal() ) {

121 if

( (*it)->GetQual() ==

"standard_name"

) {

196 const

vector< CRef< CGb_qual > >& quals = feature.

GetQual

();

197

vector< CRef< CGb_qual > >::const_iterator it = quals.begin();

198 while

( it != quals.end() ) {

199 if

( (*it)->CanGetQual() && (*it)->CanGetVal() ) {

200 if

( (*it)->GetQual() ==

"source"

) {

219 const

vector< CRef< CGb_qual > >& quals = feature.

GetQual

();

220

vector< CRef< CGb_qual > >::const_iterator it = quals.begin();

221 while

( it != quals.end() ) {

222 if

( (*it)->CanGetQual() && (*it)->CanGetVal() ) {

223 if

( (*it)->GetQual() ==

"score"

) {

304 bool

bIdAssigned =

false

;

316 for

(

size_t i

=0;

< xref.size(); ++

) {

318 if

( xref[

]->CanGetId() && xref[

]->CanGetData() ) {

324 if

( !

value

.empty() ) {

330 if

( !

value

.empty() ) {

336 const

vector< CRef< CGb_qual > >& quals = feature.

GetQual

();

337

vector< CRef< CGb_qual > >::const_iterator it = quals.begin();

338 while

( it != quals.end() ) {

339 if

( (*it)->CanGetQual() && (*it)->CanGetVal() ) {

340 if

( (*it)->GetQual() ==

"ID"

) {

341 if

( ! bIdAssigned ) {

345 if

( (*it)->GetQual() ==

"Name"

) {

348 if

( (*it)->GetQual() ==

"Var_type"

) {

366 if

( dbxrefs.size() > 0 ) {

368

dbxrefs[0]->GetLabel( &

value

);

369 for

(

size_t i

=1;

< dbxrefs.size(); ++

) {

371

dbxrefs[

]->GetLabel( &

label

);

443 const string

value

)

460 switch

(

id

.Which() ) {

466 if

(

local

.IsId() ) {

469 if

(

local

.IsStr() ) {

470 return local

.GetStr();

485

list< CRef< CSeq_feat > >::const_iterator it =

table

.begin();

486 while

( it !=

table

.end() ) {

487 if

( (*it)->CanGetId() && (*it)->CanGetData() ) {

488 if

(

id

Equals

( (*it)->GetId() ) ) {

489 return

(*it)->GetData().GetSubtype();

503 switch

( maybe_parent ) {

514 switch

( maybe_child ) {

526 switch

( maybe_child ) {

538 switch

( maybe_child ) {

User-defined methods of the data storage class.

@ eExtreme_Positional

numerical value

User-defined methods of the data storage class.

static CSeq_feat::TData::ESubtype GetSubtypeOf(const CSeq_annot &, const CFeat_id &)

bool AssignStart(const CSeq_feat &)

bool AssignScore(const CSeq_feat &)

void DumpRecord(CNcbiOstream &)

bool AssignPhase(const CSeq_feat &)

bool AssignStrand(const CSeq_feat &)

bool AssignStop(const CSeq_feat &)

bool AssignType(const CSeq_feat &)

bool SetRecord(const CSeq_annot &, const CSeq_feat &)

bool AssignSeqId(const CSeq_feat &)

bool AssignAttributesCore(const CSeq_annot &, const CSeq_feat &)

bool AssignSource(const CSeq_feat &)

void AddAttribute(const string &key, const string &value)

static string FeatIdString(const CFeat_id &id)

bool AssignAttributesExtended(const CSeq_feat &)

static bool IsParentOf(CSeq_feat::TData::ESubtype, CSeq_feat::TData::ESubtype)

ESubtype GetSubtype(void) const

string GetKey(EVocabulary vocab=eVocabulary_full) const

@ eSubtype_bad

These no longer need to match the FEATDEF values in the C toolkit's objfdef.h.

namespace ncbi::objects::

std::ofstream out("events_result.xml")

main entry point for tests

static const char location[]

#define END_NCBI_SCOPE

End previously defined NCBI scope.

#define BEGIN_NCBI_SCOPE

Define ncbi namespace.

IO_PREFIX::ostream CNcbiOstream

Portable alias for ostream.

static string IntToString(int value, TNumToStringFlags flags=0, int base=10)

Convert int to string.

static string UIntToString(unsigned int value, TNumToStringFlags flags=0, int base=10)

Convert UInt to string.

static const char label[]

bool IsId(void) const

Check if variant Id is selected.

const TStr & GetStr(void) const

Get the variant data.

TId GetId(void) const

Get the variant data.

bool CanGetDbxref(void) const

Check if it is safe to call GetDbxref method.

vector< CRef< CDbtag > > TDbxref

bool CanGetXref(void) const

Check if it is safe to call GetXref method.

bool CanGetQual(void) const

Check if it is safe to call GetQual method.

const TQual & GetQual(void) const

Get the Qual member data.

const TId & GetId(void) const

Get the Id member data.

const TLocation & GetLocation(void) const

Get the Location member data.

TFrame GetFrame(void) const

Get the Frame 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 TDbxref & GetDbxref(void) const

Get the Dbxref member data.

bool CanGetId(void) const

Check if it is safe to call GetId method.

bool CanGetLocation(void) const

Check if it is safe to call GetLocation method.

const TComment & GetComment(void) const

Get the Comment member data.

const TXref & GetXref(void) const

Get the Xref member data.

vector< CRef< CSeqFeatXref > > TXref

bool CanGetComment(void) const

Check if it is safe to call GetComment method.

@ e_Local

for local software use

@ eFrame_three

reading frame

ENa_strand

strand of nucleic acid

E_Choice Which(void) const

Which variant is currently selected.

TGi GetGi(void) const

Get the variant data.

TVersion GetVersion(void) const

Get the Version member data.

bool CanGetVersion(void) const

Check if it is safe to call GetVersion method.

const TOther & GetOther(void) const

Get the variant data.

const TLocal & GetLocal(void) const

Get the variant data.

bool CanGetAccession(void) const

Check if it is safe to call GetAccession method.

const TAccession & GetAccession(void) const

Get the Accession member data.

@ e_Other

for historical reasons, 'other' = 'refseq'

@ e_Gi

GenInfo Integrated Database.

const TFtable & GetFtable(void) const

Get the variant data.

const TData & GetData(void) const

Get the Data member data.

<!DOCTYPE HTML >< html > n< header > n< title > PubSeq Gateway Help Page</title > n< style > n table

const struct ncbi::grid::netcache::search::fields::KEY key

const GenericPointer< typename T::ValueType > T2 value

static bool Equals(const CVariation::TPlacements &p1, const CVariation::TPlacements &p2)

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