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Showing content from http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/doxyhtml/gtf__import__data_8cpp_source.html below:

NCBI C++ ToolKit: src/objtools/import/ftable/gtf_import_data.cpp Source File

67

mTranscriptId(rhs.mTranscriptId)

87  bool

scoreIsValid,

double

score,

90  const

vector<pair<string, string>>&

attributes

)

98  mpScore

= (scoreIsValid ?

new

double(score) :

nullptr

);

120  out

<<

"CGtfImportData:\n"

;

121  out

<<

" SeqId = \""

<< seqId <<

"\"\n"

;

123  out

<<

" Type = \""

<<

mType

<<

"\"\n"

;

124  out

<<

" SeqStart = "

<< seqStart <<

"\n"

;

125  out

<<

" SeqStop = "

<< seqStop <<

"\n"

;

126  out

<<

" Score = "

<< score <<

"\n"

;

127  out

<<

" SeqStrand = "

<< seqStrand <<

"\n"

;

128  out

<<

" Frame = "

<< frame <<

"\n"

;

138  const string

&

key

)

const 141  auto

it = mAttributes.find(

key

);

142  if

(it == mAttributes.end()) {

145  return

it->second.front();

151  const

vector<pair<string, string>>&

attributes

)

161  bool

foundGeneId(

false

), foundTranscriptId(

false

);

163  auto key

= keyValuePair.first;

164  auto value

= keyValuePair.second;

166  if

(

key

==

"gene_id"

) {

171  if

(

key

==

"transcript_id"

) {

173

foundTranscriptId =

true

;

179

pair<

string

, vector<string> >(

key

, vector<string>())).first;

181

appendTo->second.push_back(

value

);

185  throw

errorMissingGeneId;

187  if

(

mType

!=

"gene"

&& !foundTranscriptId) {

188  throw

errorMissingTranscriptId;

const CIdResolver & mIdResolver

CGtfImportData(const CIdResolver &, CImportMessageHandler &)

virtual void Serialize(CNcbiOstream &) override

string AttributeValueOf(const std::string &) const

std::string mTranscriptId

CCdregion::TFrame * mpFrame

void xInitializeAttributes(const std::vector< std::pair< std::string, std::string >> &)

void Initialize(const std::string &, const std::string &, const std::string &, TSeqPos, TSeqPos, bool, double, ENa_strand, const std::string &, const std::vector< std::pair< std::string, std::string >> &)

static CCdregion::TFrame PhaseToFrame(const std::string &)

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

main entry point for tests

static const struct attribute attributes[]

unsigned int TSeqPos

Type for sequence locations and lengths.

string GetSeqIdString(bool with_version=false) const

Return seqid string with optional version for text seqid type.

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

Override Assign() to incorporate cache invalidation.

void SetNull(void)

Override all setters to incorporate cache invalidation.

IO_PREFIX::ostream CNcbiOstream

Portable alias for ostream.

static string DoubleToString(double value, int precision=-1, TNumToStringFlags flags=0)

Convert double to string.

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

Convert int to string.

ENa_strand

strand of nucleic acid

const TId & GetId(void) const

Get the Id member data.

TFrom GetFrom(void) const

Get the From member data.

TStrand GetStrand(void) const

Get the Strand member data.

TTo GetTo(void) const

Get the To member data.

bool IsInt(void) const

Check if variant Int is selected.

const TInt & GetInt(void) const

Get the variant data.

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

const GenericPointer< typename T::ValueType > T2 value

const CharType(& source)[N]

Defines classes: CDirEntry, CFile, CDir, CSymLink, CMemoryFile, CFileUtil, CFileLock,...

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