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NCBI C++ ToolKit: src/gui/objutils/attached_handles.cpp Source File

annot->

().SetAlign().push_back(ref);

(

.IsLocal() ||

.IsGeneral()) {

(ti == CSeq_loc::GetTypeInfo()) {

(ti == CEntrezgene::GetTypeInfo()) {

(ti == CEntrezgene_Set::GetTypeInfo()) {

(ti == CSeq_feat::GetTypeInfo()) {

(

&

(*obj));

(ti == CGC_Assembly::GetTypeInfo()) {

(; annot_iter; ++annot_iter) {

(annot_iter->IsAlign()) {

TSortedAligns sorted_aligns;

assm_unit = gc_seq->GetAssemblyUnit()->GetName();

sorted_aligns[assm_unit].push_back(*aln_iter);

( !sorted_aligns.empty() ) {

annot_name =

;

(annot_iter->IsSetDesc()) {

(objects::CAnnot_descr::Tdata, descrIter, annot_iter->GetDesc().

()) {

((*descrIter)->IsTitle()) {

annot_name = (*descrIter)->GetTitle();

}

((*descrIter)->IsName()) {

annot_name = (*descrIter)->GetName();

( !annot_name.empty() ) {

annot_name +=

;

annot->

(annot_name + sorted_annot_iter->first);

annot->

().SetAlign() = sorted_annot_iter->second;

(ti == CBioTreeContainer::GetTypeInfo()) {

(ti == CProjectItem::GetTypeInfo()) {

CSeq_entry::GetTypeInfo(), objs);

(

&

(obj_iter->GetObject()));

<<

<< ex.

()

<<

User-defined methods of the data storage class.

User-defined methods of the data storage class.

User-defined methods of the data storage class.

User-defined methods of the data storage class.

User-defined methods of the data storage class.

User-defined methods of the data storage class.

User-defined methods of the data storage class.

static CRef< CSeq_annot > s_AlignSet2Annot(const CObject &obj)

static CSeq_annot_Handle s_AttachAnnotToScope(CScope &scope, CSeq_annot &annot)

static CRef< CSeq_annot > s_Align2Annot(const CObject &obj)

static void s_DetachAnnotFromScope(CScope &scope, CSeq_annot_Handle &annot)

static CSeq_entry_Handle s_AttachEntryToScope(CScope &scope, CSeq_entry &entry)

static void s_DetachEntryFromScope(CScope &scope, CSeq_entry_Handle &handle)

vector< objects::CSeq_annot_Handle > m_Seq_annot_Handles

vector< objects::CSeq_entry_Handle > m_Seq_entry_Handles

void Attach(objects::CScope &scope, objects::CProjectItem &item, bool annot_only=false)

void Detach(objects::CScope &scope)

void Find(const CSeq_id_Handle &id, TSequenceList &sequences) const

Find all references to a given sequence within an assembly.

static void Convert(objects::CScope &scope, const CObject &obj, const CTypeInfo *info, TObjList &objs, TFlags flags=eDefault)

Convert an object of potentially unknown type to a set of objects of known type.

ITypeConverter::TObjList TObjList

const CSerialObject * GetObject() const

retrieve the object pointed to as a CObject*

void SetNameDesc(const string &name)

namespace ncbi::objects::

Base class for all serializable objects.

CTypeInfo class contains all information about C++ types (both basic and classes): members and layout...

#define ITERATE(Type, Var, Cont)

ITERATE macro to sequence through container elements.

#define NON_CONST_ITERATE(Type, Var, Cont)

Non constant version of ITERATE macro.

#define LOG_POST(message)

This macro is deprecated and it's strongly recomended to move in all projects (except tests) to macro...

void Error(CExceptionArgs_Base &args)

const string & GetMsg(void) const

Get message string.

virtual const CTypeInfo * GetThisTypeInfo(void) const =0

TObjectInfo & Get(void)

Get information about current object.

CBeginInfo Begin(C &obj)

Get starting point of object hierarchy.

const CSeq_id & GetId(const CSeq_loc &loc, CScope *scope)

If all CSeq_ids embedded in CSeq_loc refer to the same CBioseq, returns the first CSeq_id found,...

CSeq_entry_Handle AddTopLevelSeqEntry(CSeq_entry &top_entry, TPriority pri=kPriority_Default, EExist action=eExist_Default)

Add seq_entry, default priority is higher than for defaults or loaders Add object to the score with p...

CSeq_annot_Handle AddSeq_annot(CSeq_annot &annot, TPriority pri=kPriority_Default, EExist action=eExist_Throw)

Add Seq-annot, return its CSeq_annot_Handle.

void RemoveTopLevelSeqEntry(const CTSE_Handle &entry)

Revoke TSE previously added using AddTopLevelSeqEntry() or AddBioseq().

@ kPriority_Default

Use default priority for added data.

void Remove(void) const

Remove current annot.

const CTSE_Handle & GetTSE_Handle(void) const

CSeq_annot_EditHandle GetEditHandle(void) const

Get 'edit' version of handle.

void Reset(void)

Reset reference object.

TObjectType & GetObject(void)

Get object.

#define END_NCBI_SCOPE

End previously defined NCBI scope.

#define BEGIN_NCBI_SCOPE

Define ncbi namespace.

E_Choice Which(void) const

Which variant is currently selected.

const TItem & GetItem(void) const

Get the Item member data.

void SetItem(TItem &value)

Assign a value to Item data member.

const TSubmit & GetSubmit(void) const

Get the variant data.

@ e_Obsolete_plugin

plugin message This is deprecated. DO NOT USE THIS FIELD. The original spec is: plugin PluginMessage....

@ e_Other

arbitrary object (use with care!)

@ e_Annot

annotation only

@ e_Id

for projects that simply import a far-pointer

@ e_Seq_align

seq-align and seq-align-set as registered items

@ e_Submit

for submission

@ e_Entry

for projects that contain something else

list< CRef< CSeq_align > > Tdata

const Tdata & Get(void) const

Get the member data.

TSet & SetSet(void)

Select the variant.

bool CanGetAnnot(void) const

Check if it is safe to call GetAnnot method.

TAnnot & SetAnnot(void)

Assign a value to Annot data member.

const TSet & GetSet(void) const

Get the variant data.

bool IsSet(void) const

Check if variant Set is selected.

TSeq & SetSeq(void)

Select the variant.

void SetData(TData &value)

Assign a value to Data data member.

bool CanGetAnnot(void) const

Check if it is safe to call GetAnnot method.

TAnnot & SetAnnot(void)

Assign a value to Annot data member.

const TId & GetId(void) const

Get the Id member data.

list< CRef< CSeq_align > > TAlign

const TData & GetData(void) const

Get the Data member data.

list< CRef< CSeq_annot > > TAnnot

E_Choice Which(void) const

Which variant is currently selected.

list< CRef< CSeq_entry > > TEntrys

list< CRef< CSeq_annot > > TAnnots

E_Choice Which(void) const

Which variant is currently selected.

const TData & GetData(void) const

Get the Data member data.

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