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NCBI C++ ToolKit: src/gui/widgets/object_list/text_item_seq_feat.cpp Source File

list<string> non_refseq;

refseq.push_back(*it);

non_refseq.push_back(*it);

(non_refseq.size()) {

( !accs.empty() ) {

( !accs.empty() ) {

( !lines.empty() ) {

(list<string>, iter, lines) {

(iter != lines.begin()) {

ostream <<

<< *iter <<

();

ostream << *iter <<

();

list< CConstRef<CUser_object> > objs;

objs.push_back(sub_o);

ostream <<

;

method =

->GetData().GetStr();

ostream <<

;

(method ==

|| method ==

) {

( !core.empty() ) {

( !core.empty() ) {

s =

;

ostream <<

;

ostream <<

ostream <<

ostream <<

(; feat_it ; ++feat_it) {

string::size_type pos = s.find_first_not_of(

);

( pos != string::npos ){

string::size_type lpos = string::npos;

lpos = s.find_first_of(

, pos );

( lpos == string::npos ){

= s.substr( pos );

= s.substr( pos, lpos - pos );

}

( lpos != string::npos );

objects::CSeq_feat* seq_feat =

<<

(255,0,0,255,255,255,wxTRANSPARENT,

,

)

<<

;

CFlatFileConfig & SetNeverTranslateCDS(bool val=true)

static string GetSeqFeatText(const CMappedFeat &feat, CScope &scope, const CFlatFileConfig &cfg, CRef< feature::CFeatTree > ftree=null)

CRef< objects::CScope > m_Scope

CConstRef< CObject > m_Object

ESubtype GetSubtype(void) const

namespace ncbi::objects::

void WriteMultiLineText(const string &text)

virtual void x_RenderText(CStyledTextOStream &ostream, CTextPanelContext *context) const

static ITextItem * CreateObject(SConstScopedObject &object, EMode mode)

CTextItemSeq_feat(SConstScopedObject &object, EMode mode)

virtual void x_Indent(CStyledTextOStream &ostream) const

CConstRef< CUser_field > GetFieldRef(const string &str, const string &delim=".", NStr::ECase use_case=NStr::eCase) const

#define ITERATE(Type, Var, Cont)

ITERATE macro to sequence through container elements.

static objects::SAnnotSelector GetAnnotSelector(TAnnotFlags flags=0)

request an annotation selector for a given type

static void GetLabel(const CObject &obj, string *label, ELabelType type=eDefault)

static EAccessionInfo IdentifyAccession(const CTempString &accession, TParseFlags flags=fParse_AnyRaw)

Deduces information from a bare accession a la WHICH_db_accession; may report false negatives on prop...

EAccessionInfo

For IdentifyAccession (below)

TRange GetTotalRange(void) const

TSeqPos GetLength(const CSeq_id &id, CScope *scope)

Get sequence length if scope not null, else return max possible TSeqPos.

ENa_strand GetStrand(const CSeq_loc &loc, CScope *scope=0)

Returns eNa_strand_unknown if multiple Bioseqs in loc Returns eNa_strand_other if multiple strands in...

CBioseq_Handle GetBioseqHandle(const CSeq_id &id)

Get bioseq handle by seq-id.

TSeqPos GetBioseqLength(void) const

SAnnotSelector & IncludeFeatSubtype(TFeatSubtype subtype)

Include feature subtype in the search.

const CSeq_feat & GetOriginalFeature(void) const

Get original feature with unmapped location/product.

TObjectType * GetPointer(void) const THROWS_NONE

Get pointer,.

position_type GetLength(void) const

#define END_NCBI_SCOPE

End previously defined NCBI scope.

#define BEGIN_NCBI_SCOPE

Define ncbi namespace.

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

Convert int to string.

static string Join(const TContainer &arr, const CTempString &delim)

Join strings using the specified delimiter.

static void Wrap(const string &str, SIZE_TYPE width, IWrapDest &dest, TWrapFlags flags, const string *prefix, const string *prefix1)

@ fWithCommas

Use commas as thousands separator.

TTo GetTo(void) const

Get the To member data.

TFrom GetFrom(void) const

Get the From member data.

const TStr & GetStr(void) const

Get the variant data.

bool IsStr(void) const

Check if variant Str is selected.

bool IsSetType(void) const

type of object within class Check if a value has been assigned to Type data member.

const TData & GetData(void) const

Get the Data member data.

vector< CRef< CUser_field > > TFields

const TStr & GetStr(void) const

Get the variant data.

const TData & GetData(void) const

Get the Data member data.

const TObject & GetObject(void) const

Get the variant data.

const TLabel & GetLabel(void) const

Get the Label member data.

const TType & GetType(void) const

Get the Type member data.

vector< CStringUTF8 > TStrs

vector< CRef< CUser_field > > TData

const TExts & GetExts(void) const

Get the Exts member data.

bool IsSetExt(void) const

user defined structure extension Check if a value has been assigned to Ext data member.

const TLocation & GetLocation(void) const

Get the Location member data.

const TData & GetData(void) const

Get the Data member data.

const TProduct & GetProduct(void) const

Get the Product member data.

bool IsSetExts(void) const

set of extensions; will replace 'ext' field Check if a value has been assigned to Exts data member.

bool IsSetProduct(void) const

product of process Check if a value has been assigned to Product data member.

const TExt & GetExt(void) const

Get the Ext member data.

@ e_Other

for historical reasons, 'other' = 'refseq'

static void text(MDB_val *v)

void copy(Njn::Matrix< S > *matrix_, const Njn::Matrix< T > &matrix0_)

static void s_Render_SeqFeat(CStyledTextOStream &ostream, const CSeq_feat &feat, CScope &scope)

static void s_RenderAccList(CStyledTextOStream &ostream, const CUser_field::TData::TStrs &item_data, const string &title)

static void s_Render_Feat_Evidence(CStyledTextOStream &ostream, const CSeq_feat &feat, CScope &)

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