Home - News ( United States | United Kingdom | Italy | Germany ) - Football scores

Showing content from http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/doxyhtml/seq__feat__handle_8cpp_source.html below:

NCBI C++ ToolKit: src/objmgr/seq_feat_handle.cpp Source File

m_FeatIndex(feat_index)

m_FeatIndex(

(annot.x_GetInfo().x_GetSNP_annot_Info().GetIndex(snp_info))

| kNoAnnotObjectInfo),

m_CreatedFeat(&created_ref)

(*

->GetSeq_annot_Info().GetSeq_annotSkeleton())),

m_FeatIndex(

->GetAnnotIndex())

);

(

.IsRemoved() ) {

);

);

(

.IsRemoved() ) {

);

processor.

(

TCommand(*

));

processor.

(

TCommand(*

, new_feat));

);

);

& qual_val)

& db_key)

);

obj_id.

(

);

);

obj_id.

(

);

);

obj_id.

(

);

);

obj_id.

(

);

);

);

obj_id.

(

);

);

( is_snp_table ) {

: m_Annot(annot), m_Flags(

)

);

( is_snp_table ) {

bool IsRegular(void) const

TFeatSubtype GetFeatSubtype(void) const

const CSeq_feat & GetFeat(void) const

TFeatType GetFeatType(void) const

bool IsRemoved(void) const

CMDReturn< CMD >::TReturn run(CMD *cmd)

CConstRef< CSeq_feat > GetOriginalFeature(const CSeq_feat_Handle &feat_h)

Base class for all object manager exceptions.

void x_ClearAnnotCache(void)

SAnnotTypeSelector GetType(void) const

void Remove(TAnnotIndex index)

void AddFeatId(TAnnotIndex index, const CObject_id &id, EFeatIdType id_type)

const CAnnotObject_Info & GetInfo(TAnnotIndex index) const

TAnnotIndex x_GetSNPFeatCount(void) const

bool IsSortedTable(void) const

void ClearFeatIds(TAnnotIndex index, EFeatIdType id_type)

void Update(TAnnotIndex index)

bool x_HasSNP_annot_Info(void) const

void RemoveFeatId(TAnnotIndex index, const CObject_id &id, EFeatIdType id_type)

TAnnotIndex x_GetAnnotCount(void) const

const CSeqTableInfo & GetTableInfo(void) const

const CSeq_annot_SNP_Info & x_GetSNP_annot_Info(void) const

const CSeq_id & GetSeq_id(void) const

const SSNP_Info & GetInfo(size_t index) const

const string & x_GetExtra(SSNP_Info::TExtraIndex index) const

const string & x_GetComment(SSNP_Info::TCommentIndex index) const

const string & x_GetAllele(SSNP_Info::TAlleleIndex index) const

void x_GetQualityCodesOs(SSNP_Info::TQualityCodesIndex index, TOctetString &os) const

const string & x_GetQualityCodesStr(SSNP_Info::TQualityCodesIndex index) const

CSeq_feat_EditHandle –.

namespace ncbi::objects::

const CProt_ref * GetProtXref(void) const

get protein (if present) from Seq-feat.xref list

const string & GetNamedQual(const CTempString &qual_name) const

Return a named qualifier.

CConstRef< CDbtag > GetNamedDbxref(const CTempString &db) const

Return a specified DB xref.

const CGene_ref * GetGeneXref(void) const

See related function in util/feature.hpp.

CTempString implements a light-weight string on top of a storage buffer whose lifetime management is ...

#define NCBI_THROW(exception_class, err_code, message)

Generic macro to throw an exception, given the exception class, error code and message string.

static CSeq_id_Handle GetHandle(const CSeq_id &id)

Normal way of getting a handle, works for any seq-id.

TRange GetTotalRange(void) const

const CSeq_id * GetId(void) const

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

CSeq_annot_Handle GetSeq_annotHandle(const CSeq_annot &annot, EMissing action=eMissing_Default)

CRef< CCreatedFeat_Ref > m_CreatedFeat

const string & GetNamedQual(const CTempString &qual_name) const

Return a named qualifier.

const CSeq_annot_SNP_Info & x_GetSNP_annot_Info(void) const

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

Add a qualifier to this feature.

const SSNP_Info & x_GetSNP_Info(void) const

virtual bool GetPartial(void) const

virtual CSeq_id_Handle GetLocationId(void) const

TFeatIndex x_GetFeatIndex() const

CProt_ref & SetProtXref(void)

CSeq_annot_Info & x_GetInfo(void) const

const CSeq_annot_EditHandle & GetAnnot(void) const

bool x_HasAnnotObjectInfo() const

CSeq_id::TGi GetSNPGi(void) const

bool IsFtable(void) const

void RemoveExceptText(const string &exception_text)

Remove all instances of the given exception text in this feature, and reset the except flag if there ...

size_t GetSNPAllelesCount(void) const

virtual CConstRef< CSeq_feat > GetSeq_feat(void) const

CSeq_feat_EditHandle(void)

CScope_Impl & x_GetScopeImpl(void) const

CConstRef< CDbtag > GetNamedDbxref(const CTempString &db) const

Return a specified DB xref.

void x_RealReplace(const CSeq_feat &new_feat) const

Replace the feature with new Seq-feat object.

void ClearFeatIds(void)

Clear feature ids.

const SSNP_Info & x_GetSNP_InfoAny(void) const

const CProt_ref * GetProtXref(void) const

get protein (if present) from Seq-feat.xref list

void Remove(void) const

Remove the feature from Seq-annot.

void GetSNPQualityCodeOs(vector< char > &os) const

virtual const CSeq_loc & GetProduct(void) const

bool IsSetProduct(void) const

const string & GetSNPExtra(void) const

CSeq_annot_Handle m_Seq_annot

virtual const CSeq_loc & GetLocation(void) const

bool IsRemoved(void) const

Return true if this feature was removed already.

const CSeq_feat & x_GetPlainSeq_feat(void) const

const string & GetSNPAllele(size_t index) const

CConstRef< CSeq_feat > m_CreatedOriginalFeat

void AddExceptText(const string &exception_text)

Add the given exception_text and set the except flag to true.

void SetFeatId(int id)

Set single feature id.

virtual TRange GetRange(void) const

Get range for current seq-feat.

CSeq_feat_EditHandle m_Feat

void AddDbxref(const string &db_name, const string &db_key)

add a DB xref to this feature

const CAnnotObject_Info & x_GetAnnotObject_InfoAny(void) const

const CSeq_annot_Handle & GetAnnot(void) const

virtual TRange GetProductTotalRange(void) const

const CAnnotObject_Info & x_GetAnnotObject_Info(void) const

bool IsTableSNP(void) const

Check if this is SNP table feature.

const CSeq_annot_Info & x_GetSeq_annot_Info(void) const

const CSeq_annot_Info & x_GetInfo(void) const

void RemoveQualifier(const string &qual_name)

Remove all qualifiers with the given name on this feature.

void ClearFeatXrefs(void)

void AddFeatId(int id)

Add feature id.

CSeq_annot_EditHandle GetAnnot(void) const

CConstRef< CSeq_feat > GetPlainSeq_feat(void) const

Get current seq-feat.

void Update(void) const

Update index after manual modification of the object.

const string & GetSNPQualityCodeStr(void) const

CConstRef< CSeq_feat > GetOriginalSeq_feat(void) const

void Replace(const CSeq_feat &new_feat) const

Replace the feature with new Seq-feat object.

CSeqFeatData::ESubtype GetFeatSubtype(void) const

void RemoveFeatXref(int id)

CUser_field::TData::E_Choice GetSNPQualityCodeWhich(void) const

const CSeq_id & GetSNPSeq_id(void) const

bool IsTableFeat(void) const

Check if this is non-SNP table feature.

CSeqFeatData::E_Choice GetFeatType(void) const

virtual bool IsSetPartial(void) const

void x_RealRemove(void) const

Remove the feature from Seq-annot.

const CGene_ref * GetGeneXref(void) const

get gene (if present) from Seq-feat.xref list

bool IsSortedTableFeat(void) const

Check if this is a simple feature from sorted Seq-table.

const string & GetSNPComment(void) const

bool IsPlainFeat(void) const

Check if this is plain feature.

CSeq_annot_ftable_CI(void)

void Replace(const CSeq_feat &new_feat) const

Replace the feature with new Seq-feat object.

CSeq_annot_ftable_I(void)

void RemoveFeatId(int id)

Remove feature id.

virtual CSeq_id_Handle GetProductId(void) const

bool IsSetData(void) const

CGene_ref & SetGeneXref(void)

void Remove(void) const

Remove the feature from Seq-annot.

CConstRef< C > ConstRef(const C *object)

Template function for conversion of const object pointer to CConstRef.

void Reset(void)

Reset reference object.

void Reset(void)

Reset reference object.

static TThisType GetEmpty(void)

#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.

E_Choice

Choice variants.

TStr & SetStr(void)

Select the variant.

TId & SetId(void)

Select the variant.

bool IsSetData(void) const

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

bool IsSetPartial(void) const

incomplete in some way? Check if a value has been assigned to Partial data member.

const TLocation & GetLocation(void) const

Get the Location member data.

E_Choice

Choice variants.

const TProduct & GetProduct(void) const

Get the Product member data.

TPartial GetPartial(void) const

Get the Partial member data.

TGi GetGi(void) const

Get the variant data.

const GenericPointer< typename T::ValueType > T2 value

TFeatSubtype GetFeatSubtype(void) const

TFeatType GetFeatType(void) const

bool IsRemoved(void) const

CUser_field::TData::E_Choice GetQualityCodesWhich(void) const

size_t GetAllelesCount(void) const

RetroSearch is an open source project built by @garambo | Open a GitHub Issue

Search and Browse the WWW like it's 1997 | Search results from DuckDuckGo

HTML: 3.2 | Encoding: UTF-8 | Version: 0.7.4