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NCBI C++ ToolKit: src/objtools/import/ftable/gff3_import_data.cpp Source File

scoreIsValid,

score,

vector<pair<string, string>>&

)

.reset(

(score));

vector<pair<string, string>>&

)

vector<string> alwaysIgnored = {

vector<string> sometimesIgnored = {

= keyValuePair.first;

= keyValuePair.second;

itAI = find(alwaysIgnored.begin(), alwaysIgnored.end(),

);

(itAI != alwaysIgnored.end()) {

(

==

) {

itCI = find(sometimesIgnored.begin(), sometimesIgnored.end(),

);

(itCI != sometimesIgnored.end()) {

(

!=

) {

vector<string> dbxRefs;

(

dbxRef: dbxRefs) {

(

!=

) {

(!

.IsGene()) {

& geneRef =

.SetGene();

(

==

) {

geneRef.SetLocus(

);

(

==

) {

geneRef.SetLocus_tag(

);

(

==

) {

vector<string> synonyms;

(

synonym: synonyms) {

geneRef.SetSyn().push_back(synonym);

(!

.IsCdregion()) {

& cdsRef =

.SetCdregion();

(

==

) {

vector<string> codeBreaks;

(

codeBreakStr: codeBreaks) {

cdsRef.SetCode_break().push_back(pCodeBreak);

(

==

) {

cdsRef.SetCode().Set().push_back(pCe);

(!

.IsRna()) {

& rnaRef =

.SetRna();

(

==

) {

rnaRef.SetExt().SetGen().SetClass(

);

vector<string> multiValueAttrs = {

,

,

,

attrIt = find(multiValueAttrs.begin(), multiValueAttrs.end(),

);

(attrIt == multiValueAttrs.end()) {

vector<string> allValues;

(

singleValue: allValues) {

<<

;

User-defined methods of the data storage class.

User-defined methods of the data storage class.

const CIdResolver & mIdResolver

bool xInitializeDataGene(const std::string &, const std::string &)

CRef< CSeq_feat > GetData() const

virtual void Serialize(CNcbiOstream &) override

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 >> &)

bool xInitializeDataRna(const std::string &, const std::string &)

CGff3ImportData(const CIdResolver &, CImportMessageHandler &)

bool xInitializeDataCds(const std::string &, const std::string &)

unique_ptr< double > mpScore

bool xInitializeComment(const std::string &, const std::string &)

bool xInitializeMultiValue(const std::string &, const std::string &)

bool xInitializeDbxref(const std::string &, const std::string &)

ESubtype GetSubtype(void) const

namespace ncbi::objects::

void AddOrReplaceQualifier(const string &qual_name, const string &qual_val)

Add a qualifier to this feature, or replace the value for the first one if it already exists.

void AddQualifier(const string &qual_name, const string &qual_val)

Add a qualifier to this feature.

static bool SoTypeToFeature(std::string_view, CSeq_feat &, bool=false)

static CRef< CCode_break > MakeCodeBreak(const CSeq_id &, const 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.

const CSeq_id * GetId(void) const

Get the id of the location return NULL if has multiple ids or no id at all.

void Reset(void)

Reset reference object.

IO_PREFIX::ostream CNcbiOstream

Portable alias for ostream.

static int StringToInt(const CTempString str, TStringToNumFlags flags=0, int base=10)

Convert string to int.

static list< string > & Split(const CTempString str, const CTempString delim, list< string > &arr, TSplitFlags flags=0, vector< SIZE_TYPE > *token_pos=NULL)

Split a string using specified delimiters.

static string URLDecode(const CTempString str, EUrlDecode flag=eUrlDec_All)

URL-decode string.

static bool SplitInTwo(const CTempString str, const CTempString delim, string &str1, string &str2, TSplitFlags flags=0)

Split a string into two pieces using the specified delimiters.

void SetTag(TTag &value)

Assign a value to Tag data member.

void SetDb(const TDb &value)

Assign a value to Db data member.

TDbxref & SetDbxref(void)

Assign a value to Dbxref data member.

void SetLocation(TLocation &value)

Assign a value to Location data member.

void SetComment(const TComment &value)

Assign a value to Comment data member.

const TLocation & GetLocation(void) const

Get the Location member data.

const TData & GetData(void) const

Get the Data member data.

void SetData(TData &value)

Assign a value to Data data member.

ENa_strand

strand of nucleic acid

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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