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NCBI C++ ToolKit: src/gui/packages/pkg_sequence_edit/miscedit_util.cpp Source File

db_name = field_name.substr(tag_name.length());

field = field_name.substr(

(

).length() + 1,

);

= field.substr(

(

).length() + 1,

);

vector< CConstRef<CObject> > rval;

vector<CConstRef<CObject> > objs;

bi(seh, objects::CSeq_inst::eMol_na);

(edit::CSeqIdGuesser::DoesSeqMatchConstraint(*bi, string_constraint)) {

vector<CConstRef<CObject> > these_objs =

(*bi);

objs.insert(objs.end(), these_objs.begin(), these_objs.end());

vector<CConstRef<CObject> > these_objs =

(*bi);

vector<CRef<CApplyObject> >

;

vector<CConstRef<CObject> > related;

related.push_back(obj);

vector<CConstRef<CObject> > related;

* obj_desc =

*

(&(

.GetObject()));

* obj_feat =

*

(&(

.GetObject()));

* bioseq =

*

(&(

.GetObject()));

related.push_back(obj);

(bioseq || inst) {

(obj_desc && obj_desc->

()) {

vals.push_back(

(

));

curr_val =

;

(obj_desc && obj_desc->

()) {

vals.push_back(

(

));

curr_val =

;

vector<string> vals =

(

);

(vals.empty()) ?

: vals[0];

curr_val = *it;

vector<CConstRef<CObject> >

;

.Reset(&(*desc_ci));

vector<CConstRef<CObject> > objs;

bi(seh, objects::CSeq_inst::eMol_na);

(edit::CSeqIdGuesser::DoesSeqMatchConstraint(*bi, string_constraint)) {

vector<CConstRef<CObject> > these_objs =

(*bi);

objs.insert(objs.end(), these_objs.begin(), these_objs.end());

vector<CConstRef<CObject> > these_objs =

(*bi);

vector<CRef<CApplyObject> > apply_objs;

vector<CConstRef<CObject> > objs =

(bsh);

* orig_desc =

*

((*it).GetPointer());

apply_objs.push_back(new_obj);

(apply_objs.empty()) {

apply_objs.push_back(new_obj);

(seqdesc && seqdesc->

()) {

user = &(seqdesc->

());

CUser_object::TData::const_iterator it = user->

().begin();

(it != user->

().end()) {

&& (*it)->IsSetData() && (*it)->GetData().IsInt()) {

vals.push_back(

(

));

(seqdesc && seqdesc->

()) {

user = &(seqdesc->

());

(seqdesc && seqdesc->

()) {

user = &(seqdesc->

());

CUser_object::TData::iterator it = user->

().begin();

(it != user->

().end()) {

it = user->

().erase(it);

(user->

().empty()) {

(seqdesc && seqdesc->

()) {

user = &(seqdesc->

());

CUser_object::TData::iterator it = user->

().begin();

(it != user->

().end()) {

curr_val =

;

can_change =

;

((*it)->IsSetData()) {

((*it)->GetData().IsStr()) {

curr_val = (*it)->GetData().GetStr();

((*it)->GetData().IsInt()) {

(*it)->SetData().SetInt(numval);

(

exception&) {

new_field->

().SetInt(numval);

user->

().push_back(new_field);

(

exception&) {

rval =

;

(

exception&) {

(vector<string>, it, values) {

rval.push_back(

(*it));

vector<CConstRef<CObject> > related;

* bioseq =

*

(&object);

related.push_back(obj);

vector<CConstRef<CObject> > related;

* obj_desc =

*

(&(

.GetObject()));

* obj_feat =

*

(&(

.GetObject()));

related.push_back(obj);

vector<CConstRef<CObject> >

;

vector<CConstRef<CObject> >

;

bi(seh, objects::CSeq_inst::eMol_na);

(edit::CSeqIdGuesser::DoesSeqMatchConstraint(*bi, string_constraint)) {

vector<CRef<CApplyObject> >

;

vector<CConstRef<CObject> >

;

* bioseq =

*

(&object);

bi(seh, objects::CSeq_inst::eMol_na);

}

(obj_feat) {

vector<CConstRef<CObject> >

;

bi(

.GetSEH(), objects::CSeq_inst::eMol_na);

vector<string> vals =

(

);

(vals.empty()) ?

: vals[0];

* bioseq =

*

(&object);

* bioseq =

*

(&object);

vals.push_back(desc_it->GetComment());

(bankit.begin(), bankit.end(), back_inserter(vals));

vector<CConstRef<CObject> >

;

& constraint_field,

vector<CConstRef<CObject> >

;

bi(seh, objects::CSeq_inst::eMol_na);

(edit::CSeqIdGuesser::DoesSeqMatchConstraint(*bi, string_constraint)) {

constraint_field, string_constraint,

vector<CRef<CApplyObject> >

;

vector<CConstRef<CObject> >

;

* bioseq =

*

(&object);

bi(seh, objects::CSeq_inst::eMol_na);

(obj_feat) {

vector<CConstRef<CObject> >

;

bi(

.GetSEH(), objects::CSeq_inst::eMol_na);

* bioseq =

*

(&object);

(bioseq && bioseq->

()) {

vector<string> vals;

vals.push_back(

(

));

* bioseq =

*

(&object);

(bioseq && bioseq->

()) {

(; iter != sm_GenIdMap.end(); ++iter){

(iter->second == stype_part){

(iter != sm_GenIdMap.end()){

iter->second;

* bioseq =

*

(&object);

(bioseq && bioseq->

()) {

& seqid = **seqid_ci;

.erase(

.end() - 1);

vector< CConstRef<CObject> >

;

vector< CConstRef<CObject> >

;

vector<CRef<CApplyObject> >

;

vector< CConstRef<CObject> >

;

vector< CConstRef<CObject> >

;

vector<string> vals =

(

);

(vals.empty()) ?

: vals[0];

vector<string> vals;

(seqdesc && seqdesc->

()) {

(!user.

().empty()) {

(!vals.empty()) {

* bioseq =

*

(&object);

(bioseq && bioseq->

()) {

vals.push_back(

);

(seqdesc && seqdesc->

()) {

(user.

().empty()) {

* bioseq =

*

(&object);

(bioseq && bioseq->

()) {

vector< CConstRef<CObject> > rval;

rval.push_back(obj);

vector<CConstRef<CObject> > objs;

bi (seh, objects::CSeq_inst::eMol_na);

(edit::CSeqIdGuesser::DoesSeqMatchConstraint(*bi, string_constraint)) {

vector<CConstRef<CObject> > these_objs =

(*bi);

objs.insert(objs.end(), these_objs.begin(), these_objs.end());

vector<CConstRef<CObject> > these_objs =

(*bi);

objs.push_back(*it);

vector<CRef<CApplyObject> >

;

vector<CConstRef<CObject> > related;

related.push_back(obj);

vector<CConstRef<CObject> > related;

related.push_back(obj);

vector<string> vals =

(

);

(vals.empty()) ?

: vals[0];

vector<string> vals;

((*it)->IsSetLabel() && (*it)->GetLabel().IsStr() && (*it)->IsSetData()

((*it)->GetData().Which()) {

vals.push_back((*it)->GetData().GetStr());

CUser_object::TData::iterator it = user->

().begin();

(it != user->

().end()) {

((*it)->IsSetLabel() && (*it)->GetLabel().IsStr() &&

it = user->

().erase(it);

(user->

().empty()) {

found =

;

CUser_object::TData::iterator it = user->

().begin();

(it != user->

().end()) {

((*it)->IsSetLabel() && (*it)->GetLabel().IsStr()

rval |=

(**it, newValue, existing_text);

(!(*it)->IsSetData()) {

it = user->

().erase(it);

(user->

().empty()) {

field.

().SetStr(curr_val);

field.

().SetStr(newValue);

field.

().SetStr(newValue);

user.

().push_back(field);

(field_names.empty()) {

user.

().push_back(field);

vector<string>::iterator sit = field_names.begin();

CUser_object::TData::iterator fit = user.

().begin();

(sit != field_names.end() && fit != user.

().end()) {

field_label = (*fit)->GetLabel().GetStr();

user.

().insert(fit, field);

user.

().insert(fit, field);

user.

().push_back(field);

(seqdesc && seqdesc->

()) {

user = &(seqdesc->

());

(seqdesc && seqdesc->

()) {

user = &(seqdesc->

());

vector<string> vals;

CUser_object::TData::iterator it = user->

().begin();

(it != user->

().end()) {

((*it)->IsSetLabel() && (*it)->GetLabel().IsStr()

it = user->

().erase(it);

(user->

().empty()) {

found =

;

CUser_object::TData::iterator it = user->

().begin();

(it != user->

().end()) {

((*it)->IsSetLabel() && (*it)->GetLabel().IsStr()

rval |=

(**it, newValue, existing_text);

(!(*it)->IsSetData()) {

it = user->

().erase(it);

(user->

().empty()) {

root = curr_val;

field.

().SetStr(pre);

field.

().SetStr(suf);

field.

().SetStr(pre);

field.

().SetStr(suf);

field.

().SetStr(pre);

field.

().SetStr(suf);

vector<string> vals;

((*it)->IsSetLabel() && (*it)->GetLabel().IsStr()

vals.push_back((*it)->GetLabel().GetStr());

new_field->

(**it);

CUser_object::TData::iterator it = user->

().begin();

(it != user->

().end()) {

((*it)->IsSetLabel() && (*it)->GetLabel().IsStr()

it = user->

().erase(it);

(user->

().empty()) {

found =

;

CUser_object::TData::iterator it = user->

().begin();

(it != user->

().end()) {

((*it)->IsSetLabel() && (*it)->GetLabel().IsStr()

rval |=

(**it, newValue, existing_text);

new_field->SetLabel().SetStr(newValue);

new_field->SetData().SetStr(

);

CUser_object::TData::iterator it = user->

().begin();

((*it)->IsSetLabel() && (*it)->GetLabel().IsStr()

(user->

().empty()) {

field.

().SetStr(curr_val);

vector< CConstRef<CObject> >

;

vector< CConstRef<CObject> >

;

vector<CRef<CApplyObject> >

;

vector< CConstRef<CObject> >

;

vector< CConstRef<CObject> >

;

* bioseq =

*

(&object);

(pos == string::npos) {

= name.substr(0, pos);

vector<CConstRef<CObject> >

;

vector<CConstRef<CObject> > objs;

bi (seh, objects::CSeq_inst::eMol_na);

(edit::CSeqIdGuesser::DoesSeqMatchConstraint(*bi, string_constraint)) {

vector<CConstRef<CObject> > these_objs =

(*bi);

objs.insert(objs.end(), these_objs.begin(), these_objs.end());

vector<CConstRef<CObject> > these_objs =

(*bi);

objs.push_back (*it);

vector<CRef<CApplyObject> > objs;

}

(

) {

vector<CConstRef<CObject> > feats =

(bsh);

vector<CRef<CApplyObject> > objs;

bi (seh, objects::CSeq_inst::eMol_na);

(edit::CSeqIdGuesser::DoesSeqMatchConstraint(*bi, string_constraint)) {

objs.insert(objs.end(), these_objs.begin(), these_objs.end());

objs.push_back (*it);

bi (seh, objects::CSeq_inst::eMol_na);

(edit::CSeqIdGuesser::DoesSeqMatchConstraint(*bi, string_constraint)) {

vector<CRef<CApplyObject> > these_objs =

->GetApplyObjects(*bi);

objs.insert(objs.end(), these_objs.begin(), these_objs.end());

vector<CRef<CApplyObject> > these_objs =

->GetApplyObjects(*bi);

objs.push_back (*it);

bi (seh, objects::CSeq_inst::eMol_na);

(edit::CSeqIdGuesser::DoesSeqMatchConstraint(*bi, string_constraint)) {

objs.insert(objs.end(), these_objs.begin(), these_objs.end());

objs.push_back (*it);

bi (seh, objects::CSeq_inst::eMol_na);

bi (seh, objects::CSeq_inst::eMol_na);

vector<CRef<CApplyObject> > these_objs =

->GetApplyObjects(*bi);

bi (seh, objects::CSeq_inst::eMol_na);

vector<string> add = col->

(**it);

values.

(add.begin(), add.end());

vector<string> vals;

any_change =

;

orig_val =

(*

);

* old_desc =

*

(

.GetPointer());

* old_feat =

*

(

.GetPointer());

new_desc->

(*old_desc);

->AddCommand(*ecmd);

->AddCommand(*ecmd);

}

(old_feat) {

new_feat->

(*old_feat);

(update_mrna_product) {

prot_product =

(*new_feat);

(also_change_mrna) {

->AddCommand(*also_change_mrna);

update_mrna_product)

(

(*new_obj,

, existing_text)) {

(update_mrna_product) {

prot_product =

(*new_obj);

(also_change_mrna) {

->AddCommand(*also_change_mrna);

* old_desc =

*

(

.GetPointer());

* old_feat =

*

(

.GetPointer());

new_desc->

(*old_desc);

new_obj = (

*)new_desc;

}

(old_feat) {

new_feat->

(*old_feat);

new_obj = (

*)new_feat;

success =

;

(seh && new_desc) {

->AddCommand(*ecmd);

}

(old_feat) {

(src_prot_name) {

prot_product =

(

.SetObject());

}

(dest_prot_name) {

prot_product = other.

(

.SetObject());

also_change_mrna;

(src_prot_name) {

(dest_mRNA_notproduct) {

}

(dest_prot_name) {

(src_notmRNA_product) {

changed_src =

;

also_change_mrna;

& field_name,

update_mrna_product)

=

(

.SetObject());

orig_val = other.

(

.SetObject());

(other.

(

.SetObject(),

, existing_text)) {

(update_mrna_product) {

( ! leave_original ) {

(also_change_mrna) {

->AddCommand(*also_change_mrna);

leave_original,

& field_name,

update_mrna_product)

(!src_object || !dst_object) {

(src_object == dst_object || src_object->GetOriginalObject() == dst_object->GetOriginalObject()) {

(*src_object, other, existing_text, cap_change, leave_original, field_name, update_mrna_product);

=

(src_object->SetObject());

orig_val = other.

(dst_object->SetObject());

(other.

(dst_object->SetObject(),

, existing_text)) {

changed_src =

;

(update_mrna_product) {

also_change_mrna =

(*src_object, *dst_object, other, changed_src);

( ! leave_original) {

(src_object->SetObject());

changed_src =

;

->AddCommand(*change_src);

->AddCommand(*change_dst);

(also_change_mrna) {

->AddCommand(*also_change_mrna);

=

(

.SetObject());

(other.

(

.SetObject(),

, existing_text)) {

(update_mrna_product) {

(also_change_mrna) {

->AddCommand(*also_change_mrna);

update_mrna_product)

(!src_object || !dst_object) {

(src_object == dst_object || src_object->GetOriginalObject() == dst_object->GetOriginalObject()) {

(*src_object, other, existing_text, update_mrna_product);

=

(src_object->SetObject());

orig_val = other.

(dst_object->SetObject());

(other.

(dst_object->SetObject(),

, existing_text)) {

changed_src =

;

(update_mrna_product) {

also_change_mrna =

(*src_object, *dst_object, other, changed_src);

->AddCommand(*change_src);

->AddCommand(*change_dst);

(also_change_mrna) {

->AddCommand(*also_change_mrna);

val1 =

(

.SetObject());

val2 = other.

(

.SetObject());

change =

;

other.

(

.SetObject());

other.

(

.SetObject());

other.

(

.SetObject());

(update_mrna_product) {

(also_change_mrna) {

->AddCommand(*also_change_mrna);

update_mrna_product)

(!src_object || !dst_object) {

(src_object == dst_object || src_object->GetOriginalObject() == dst_object->GetOriginalObject()) {

(*src_object, other, existing_text, update_mrna_product);

val1 =

(src_object->SetObject());

val2 = other.

(dst_object->SetObject());

change =

;

(src_object->SetObject());

other.

(dst_object->SetObject());

other.

(dst_object->SetObject());

(src_object->SetObject());

(src_object->SetObject());

other.

(dst_object->SetObject());

(change && update_mrna_product) {

changed_src =

;

also_change_mrna =

(*src_object, *dst_object, other, changed_src);

->AddCommand(*change_src);

->AddCommand(*change_dst);

(also_change_mrna) {

->AddCommand(*also_change_mrna);

update_mrna_product)

val1 =

(

.SetObject());

other.

(

.SetObject(), val2, existing_text);

(update_mrna_product) {

(also_change_mrna) {

->AddCommand(*also_change_mrna);

update_mrna_product)

(!src_object || !dst_object) {

(src_object == dst_object || src_object->GetOriginalObject() == dst_object->GetOriginalObject()) {

(*src_object, other, parse_options, existing_text, update_mrna_product);

val1 =

(src_object->SetObject());

other.

(dst_object->SetObject(), val2, existing_text);

changed_src =

;

(src_object->SetObject());

changed_src =

;

(update_mrna_product) {

also_change_mrna =

(*src_object, *dst_object, other, changed_src);

->AddCommand(*change_src);

->AddCommand(*change_dst);

(also_change_mrna) {

->AddCommand(*also_change_mrna);

vector<string> values;

values.push_back(

);

(problems.size() > 0) {

= problems[0];

vector<string> values;

values.push_back(

);

(problems.size() > 0) {

= problems[0];

vector<string> problems;

vector<string> curr_vals =

(obj);

(vector<string>, it, curr_vals) {

vector<CRef<CSeqTable_column> > column_list;

(vector<string>, sit, fields) {

field_list.push_back(col);

((*it)->IsFeature()) {

vector<CConstRef< CObject> >

= (*it)->GetObjects(bsh);

max_rows = 0;

(

= 0;

< rows.size();

++)

(rows[

] > max_rows)

max_rows = rows[

];

->SetColumns().push_back(id_col);

vector<CRef<CSeqTable_column> > column_list;

(vector<string>, sit, fields) {

field_list.push_back(col);

bi(entry, objects::CSeq_inst::eMol_na);

vector<size_t> rows(field_list.size(),0);

vector<CConstRef< CObject> >

= (*it)->GetObjects(*bi);

(

= 0;

<

.size();

++) {

(

= row1;

< row2;

++)

->SetColumns()[0]->SetData().SetId().push_back(

);

(

= 0;

< field_list.size();

++)

((*t)->GetOriginalObject() == (*p)->GetOriginalObject()) {

(*t)->ReplaceEditable((*p)->SetObject());

ur =

;

rval =

+ ur +

+ sep;

+=

;

vector<CConstRef<CSeq_feat> > feat_list;

.Reset(

->GetOriginalSeq_feat());

feat_list.push_back(

);

vector<CConstRef<CSeq_feat> > feat_list;

(obj_is_prot && constraint_is_prot) {

}

(obj_is_prot && !constraint_is_prot) {

}

(!obj_is_prot && constraint_is_prot) {

vector<CConstRef<CSeq_feat> > this_list =

(*(it->second), constraint_type, scope);

feat_list.insert(feat_list.end(), this_list.begin(), this_list.end());

feat_list.push_back(

);

feat_list.push_back(it->second);

feat_list.push_back(

);

feat_list.push_back(

);

vector<CRef<CApplyObject> > feat_list;

feat_list.push_back(p);

(feat_list.empty() &&

->Assign(*(p_bsh.

().front().GetSeqId()));

new_feat->

().SetProt();

vector<CRef<CApplyObject> > feat_list;

(obj_is_prot && constraint_is_prot) {

}

(obj_is_prot && !constraint_is_prot) {

feat_list.push_back(p);

}

(!obj_is_prot && constraint_is_prot) {

feat_list.insert(feat_list.end(), this_list.begin(), this_list.end());

feat_list.push_back(p);

new_feat->

().SetGene();

feat_list.push_back(p);

feat_list.push_back(p);

feat_list.push_back(p);

vector<CConstRef<CObject> > related;

* bioseq =

*

(&object);

related.push_back(obj);

(seh && obj_desc->

()) {

}

(obj_feat) {

related.push_back(obj);

(obj_type == constraint_type) {

related.push_back(obj);

vector<CConstRef<CSeq_feat> > feat_list =

(*obj_feat, constraint_type, scope);

related.insert(related.end(), feat_list.begin(), feat_list.end());

}

(obj_desc) {

(seh && obj_desc->

()) {

related.push_back(obj);

vector<CConstRef<CObject> > related;

* obj_desc =

*

(&(

.GetObject()));

* obj_feat =

*

(&(

.GetObject()));

* bioseq =

*

(&(

.GetObject()));

(bioseq || inst) {

related =

(

.GetSEH().GetSeq());

related.push_back(obj);

(seh && obj_desc->

()) {

}

(obj_feat) {

related.push_back(obj);

(obj_type == constraint_type ||

related.push_back(obj);

vector<CConstRef<CSeq_feat> > feat_list =

(*obj_feat, constraint_type, scope);

related.insert(related.end(), feat_list.begin(), feat_list.end());

}

(obj_desc) {

(seh && obj_desc->

()) {

related.push_back(obj);

vector<CRef<CApplyObject> > related;

* obj_desc =

*

(&(

.GetObject()));

* obj_feat =

*

(&(

.GetObject()));

* bioseq =

*

(&(

.GetObject()));

(bioseq || inst) {

related.push_back(obj);

}

(obj_feat) {

related.push_back(obj);

(obj_type == constraint_type) {

related.push_back(obj);

related.insert(related.end(), feat_list.begin(), feat_list.end());

}

(obj_desc) {

related.push_back(obj);

vector<string> val_list;

vector<string> add = col->

(**it);

val_list.insert(val_list.end(), add.begin(), add.end());

vector<string> val_list;

vector<string> add = col->

(**it);

val_list.insert(val_list.end(), add.begin(), add.end());

(entry.

()) {

new_desc->

(desc);

}

(entry.

()) {

->AddCommand(*ecmd);

->AddCommand (*ecmd);

(!view_srv)

;

(projectTree &&

.empty()) {

* ptr = it->object.GetPointer();

(seqloc || bioseq) {

(; b_iter; ++b_iter, ++NAseqs);

(NAseqs == 1 &&

.size() == 2) {

(viewed_bseqs == NAseqs);

(; b_iter; ++b_iter, ++NAseqs);

(NAseqs == 1 &&

.size() == 2) {

(viewed_bseqs > NAseqs);

static CRef< CScope > m_Scope

User-defined methods of the data storage class.

User-defined methods of the data storage class.

CSeq_entry_Handle GetSeqEntryForSeqdesc(CRef< CScope > scope, const CSeqdesc &seq_desc)

bool AdjustProteinFeaturePartialsToMatchCDS(CSeq_feat &new_prot, const CSeq_feat &cds)

AdjustProteinFeaturePartialsToMatchCDS A function to change an existing MolInfo to match a coding reg...

CSeq_entry_Handle GetSEH() const

const CObject * GetOriginalObject() const

const CSeq_id * GetLocalId() const

Find a local ID if present.

static EDBLinkFieldType GetTypeForLabel(string label)

@ eDBLinkFieldType_Unknown

void GetLabel(string *label) const

virtual string GetVal(const CObject &object)

virtual vector< string > GetVals(const CObject &object)

virtual bool SetVal(CObject &object, const string &val, objects::edit::EExistingText existing_text)

virtual bool IsEmpty(const CObject &object) const

virtual void ClearVal(CObject &object)

static CRef< CFeatureSeqTableColumnBase > Create(const string &sTitle, objects::CSeqFeatData::ESubtype subtype=objects::CSeqFeatData::eSubtype_any)

virtual vector< CConstRef< CObject > > GetObjects(objects::CBioseq_Handle bsh)

virtual bool AllowMultipleValues()

virtual void ClearInFeature(objects::CSeq_feat &in_out_feat)

void SetMajorType(objects::CSeqFeatData::E_Choice major_type)

virtual string GetFromFeat(const objects::CSeq_feat &in_out_feat)

objects::CSeqFeatData::E_Choice GetMajorType()

void SetScope(CRef< CScope > scope)

virtual vector< string > IsValid(const vector< string > &values)

virtual vector< CRef< objects::edit::CApplyObject > > GetApplyObjects(objects::CBioseq_Handle bsh)

virtual bool AddToFeature(objects::CSeq_feat &in_out_feat, const string &newValue, objects::edit::EExistingText existing_text)

virtual string GetLabel() const

objects::CSeqFeatData::ESubtype GetSubtype()

static CRef< ncbi::CFieldHandler > Create(const string &field_name)

virtual string GetVal(const CObject &object)

virtual bool IsEmpty(const CObject &object) const

bool x_IsNCBIFILEId(const objects::CSeq_id &seq_id)

void SetFormatGenbank(void)

void SkipGenbankBlock(FGenbankBlocks fTGenbankBlocksMask)

void SetStyleNormal(void)

@ fGenbankBlocks_FeatAndGap

@ fGenbankBlocks_Sequence

@ fGenbankBlocks_Featheader

@ fGenbankBlocks_Basecount

virtual vector< CConstRef< CObject > > GetObjects(objects::CBioseq_Handle bsh)

virtual vector< CConstRef< CObject > > GetRelatedObjects(const CObject &object, CRef< objects::CScope > scope)

virtual vector< CRef< objects::edit::CApplyObject > > GetApplyObjects(objects::CBioseq_Handle bsh)

virtual string GetVal(const CObject &object)

void Generate(const CSeq_entry_Handle &entry, CFlatItemOStream &item_os, const multiout &={})

virtual bool IsEmpty(const CObject &object) const

virtual void SetConstraint(const string &field, CConstRef< objects::edit::CStringConstraint > string_constraint)

virtual string GetVal(const CObject &object)

virtual void ClearVal(CObject &object)

CRef< objects::edit::CStringConstraint > m_StringConstraint

virtual bool SetVal(CObject &object, const string &val, objects::edit::EExistingText existing_text)

virtual vector< string > GetVals(const CObject &object)

static EGeneralIDPart GetGeneralIDPart_FromName(const string &name)

virtual string GetVal(const CObject &object)

EGeneralIDPart m_GeneralIDPart

static const string & GetName_GeneralIDPart(EGeneralIDPart stype_part)

virtual bool SetVal(CObject &object, const string &val, objects::edit::EExistingText existing_text)

static bool IsGenomeProject(const objects::CUser_object &user)

virtual vector< CRef< objects::edit::CApplyObject > > GetApplyObjects(objects::CBioseq_Handle bsh)

static bool IsGenomeProjectID(const objects::CUser_field &field)

virtual bool IsEmpty(const CObject &object) const

virtual string GetVal(const CObject &object)

virtual string IsValid(const string &val)

virtual vector< CConstRef< CObject > > GetObjects(objects::CBioseq_Handle bsh)

virtual void ClearVal(CObject &object)

virtual vector< string > GetVals(const CObject &object)

virtual vector< CConstRef< CObject > > GetRelatedObjects(const CObject &object, CRef< objects::CScope > scope)

virtual string GetVal(const CObject &object)

virtual vector< CConstRef< CObject > > GetObjects(objects::CBioseq_Handle bsh)

virtual bool IsEmpty(const CObject &object) const

virtual vector< string > GetVals(const CObject &object)

virtual vector< CRef< objects::edit::CApplyObject > > GetApplyObjects(objects::CBioseq_Handle bsh)

virtual vector< CConstRef< CObject > > GetRelatedObjects(const CObject &object, CRef< objects::CScope > scope)

CRef< CCmdComposite > SetValCmd(CConstRef< CObject > object, const string &val, objects::edit::EExistingText existing_text, objects::CScope &scope, bool update_mrna_product=false)

bool AllowMultipleValues()

CRef< ncbi::CFieldHandler > m_FieldHandler

CRef< CSrcTableColumnBase > m_Src

CRef< CObject > GetNewObject(CConstRef< CObject > obj)

vector< CRef< objects::edit::CApplyObject > > GetApplyObjects(objects::CBioseq_Handle bsh)

bool IsProductField(void)

void AddApplyObjectValue(const objects::edit::CApplyObject &object, const string &field, set< string > &values)

void ClearVal(CObject &object)

vector< CConstRef< CObject > > GetRelatedObjects(const CObject &object, CRef< objects::CScope > scope)

static bool s_IsSequenceIDField(const string &field)

CRef< CCmdComposite > SwapValCmd(objects::edit::CApplyObject &object, CMiscSeqTableColumn &other, objects::edit::EExistingText existing_text, bool update_mrna_product)

int CountConflicts(set< CConstRef< CObject > > objs, const string &val)

bool IsEmpty(const CObject &object) const

objects::CSeqdesc::E_Choice GetDescriptorSubtype()

CRef< CCmdComposite > ConvertValCmd(objects::edit::CApplyObject &object, CMiscSeqTableColumn &other, objects::edit::EExistingText existing_text, objects::ECapChange cap_change, const bool leave_original, const string &field_name, const bool update_mrna_product)

void SetConstraint(string field, CRef< objects::edit::CStringConstraint > string_constraint)

CRef< CCmdComposite > GetReplacementCommand(CConstRef< CObject >, CRef< CObject > newobj, objects::CScope &scope, const string &cmd_name)

CRef< CCmdComposite > CopyValCmd(objects::edit::CApplyObject &object, CMiscSeqTableColumn &other, objects::edit::EExistingText existing_text, bool update_mrna_product)

vector< string > GetVals(const CObject &object)

objects::CSeqFeatData::ESubtype GetFeatureSubtype()

CRef< CCmdComposite > ParseValCmd(objects::edit::CApplyObject &object, CMiscSeqTableColumn &other, const objects::edit::CParseTextOptions &parse_options, objects::edit::EExistingText existing_text, bool update_mrna_product)

CMiscSeqTableColumn(const string &name)

vector< CConstRef< CObject > > GetObjects(objects::CBioseq_Handle bsh)

CRef< CCmdComposite > x_GetMrnaUpdate(objects::edit::CApplyObject &object, CMiscSeqTableColumn &other)

CRef< CFeatureSeqTableColumnBase > m_Feature

vector< CRef< objects::edit::CApplyObject > > GetRelatedApplyObjects(objects::edit::CApplyObject &object)

string IsValid(const string &val)

string GetVal(const CObject &object)

CRef< CCmdComposite > ClearValCmd(CConstRef< CObject > object, bool update_mrna_product, objects::CScope &scope)

bool SetVal(CObject &object, const string &val, objects::edit::EExistingText existing_text)

void GetApplyObjectsValues(objects::CSeq_entry_Handle seh, const string &constraint_field, set< string > &values)

void SetScope(CRef< objects::CScope > scope)

static EMolInfoFieldType GetFieldType(const string &field_name)

CNcbiOstrstreamToString class helps convert CNcbiOstrstream to a string Sample usage:

ostream & AsString(ostream &s) const

void RemoveSelectedText(string &input, bool remove_first_only=true) const

string GetSelectedText(const string &input) const

bool ShouldRemoveFromParsed() const

CProjectTreeView - a system view that displays Project Tree.

void GetSingleObject(TConstScopedObjects &objects) const

virtual void GetSelection(TConstScopedObjects &objects) const

shall return data objects representing selected things, return one data object for every selected thi...

static EPubFieldType GetTypeForLabel(string label)

ESubtype GetSubtype(void) const

static E_Choice GetTypeFromSubtype(ESubtype subtype)

@ eSubtype_bad

These no longer need to match the FEATDEF values in the C toolkit's objfdef.h.

static ESubtype SubtypeNameToValue(CTempString sName)

Turn a string into its ESubtype which is NOT necessarily related to the identifier of the enum.

virtual vector< CConstRef< CObject > > GetRelatedObjects(const CObject &object, CRef< objects::CScope > scope)

virtual vector< string > GetVals(const CObject &object)

virtual vector< CRef< objects::edit::CApplyObject > > GetApplyObjects(objects::CBioseq_Handle bsh)

virtual string GetVal(const CObject &object)

virtual vector< CConstRef< CObject > > GetObjects(objects::CBioseq_Handle bsh)

namespace ncbi::objects::

static CRef< CSrcTableColumnBase > Create(const objects::CSeqTable_column &column)

virtual void SetConstraint(const string &field_name, CConstRef< edit::CStringConstraint > string_constraint)

virtual vector< string > IsValid(const vector< string > &values)

vector< CRef< objects::edit::CApplyObject > > GetApplyObjects(CBioseq_Handle bsh)

string GetVal(const CObject &object)

vector< string > GetVals(const CObject &object)

vector< CConstRef< CObject > > GetObjects(CBioseq_Handle bsh)

void ClearVal(CObject &object)

virtual bool AllowMultipleValues()

virtual bool AddToBioSource(objects::CBioSource &in_out_bioSource, const string &newValue, objects::edit::EExistingText existing_text)

class CStaticArrayMap<> provides access to a static array in much the same way as CStaticArraySet<>,...

TBase::const_iterator const_iterator

bool DoesListMatch(const vector< string > &vals)

virtual vector< string > GetVals(const CObject &object)

virtual void ClearVal(CObject &object)

virtual bool SetVal(CObject &object, const string &val, objects::edit::EExistingText existing_text)

unsigned int m_NrOfSetting

virtual void ClearVal(CObject &object)

virtual bool SetVal(CObject &object, const string &val, objects::edit::EExistingText existing_text)

virtual vector< string > GetVals(const CObject &object)

objects::CUser_object::TData m_FieldValuePairs

void x_InsertFieldAtCorrectPosition(objects::CUser_object &user, CRef< objects::CUser_field > field)

virtual vector< CConstRef< CObject > > GetRelatedObjects(const CObject &object, CRef< objects::CScope > scope)

virtual vector< string > GetVals(const CObject &object)

virtual void ClearVal(CObject &object)

virtual string GetVal(const CObject &object)

virtual bool IsEmpty(const CObject &object) const

virtual bool SetVal(CObject &object, const string &val, objects::edit::EExistingText existing_text)

virtual vector< CRef< objects::edit::CApplyObject > > GetApplyObjects(objects::CBioseq_Handle bsh)

virtual vector< CConstRef< CObject > > GetObjects(objects::CBioseq_Handle bsh)

const objects::CUser_object * x_GetUser_Object(const CObject &object) const

virtual vector< CConstRef< CObject > > GetRelatedObjects(const CObject &object, CRef< objects::CScope > scope)

virtual vector< CRef< objects::edit::CApplyObject > > GetApplyObjects(objects::CBioseq_Handle bsh)

objects::CSeqdesc::E_Choice m_Subtype

virtual vector< CConstRef< CObject > > GetObjects(objects::CBioseq_Handle bsh)

EObjectType GetObjectType() const

class IProjectView defines the abstract interface for views observing projects.

virtual string GetLabel(ELabelType type) const =0

returns name of the plug-in created this view (view class name)

virtual void GetMainObject(TConstScopedObjects &objects) const =0

Adds the main data objects represented by the client to "objects".

virtual void GetActiveObjects(TConstScopedObjects &objects) const

IViewManagerService IViewManagerService manages views in Workbench.

IWorkbench is the central interface in the application framework.

iterator_bool insert(const value_type &val)

static auto & RemoveFieldNameFromString

static auto & FixCapitalizationInString

int FindHighestFeatureId(const objects::CSeq_entry_Handle &entry)

void SetRnaProductName(objects::CRNA_ref &rna, const string &product, string &remainder, objects::edit::EExistingText existing_text)

const char * kDefinitionLineLabel

const char * kStructCommFieldName

const char * kFieldTypeSeqId

const char * kGenomeProjectID

const char * kStructCommDBName

const char * kStructCommFieldValuePair

const char * kCommentDescriptorLabel

const char * kBankITComment

const char * kGenbankBlockKeyword

const char * kSequenceIdColLabel

#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...

const string & GetMsg(void) const

Get message string.

CIRef< T > GetServiceByType()

retrieves a typed reference to a service, the name of C++ type is used as the name of the service.

vector< CIRef< IView > > TViews

virtual void GetViews(TViews &views)=0

get all registered views

vector< SConstScopedObject > TConstScopedObjects

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

Set object to copy of another one.

void GetLabel(string *label, ELabelType type=eDefault, TLabelFlags flags=fLabel_Default) const

Append a label for this Seq-id to the supplied string.

CConstRef< CSeq_id > GetSeqId(void) const

@ eContent

Untagged human-readable accession or the like.

CRef< CSeq_loc > Merge(TOpFlags flags, ISynonymMapper *syn_mapper) const

All functions create and return a new seq-loc object.

const CSeq_id * GetId(void) const

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

CMappedFeat GetBestMrnaForCds(const CMappedFeat &cds_feat, CFeatTree *feat_tree=0, const SAnnotSelector *base_sel=0)

CMappedFeat GetBestCdsForMrna(const CMappedFeat &mrna_feat, CFeatTree *feat_tree=0, const SAnnotSelector *base_sel=0)

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,...

@ eOverlap_Contains

2nd contains 1st extremes

@ eOverlap_Contained

2nd contained within 1st extremes

const CSeq_feat * GetCDSForProduct(const CBioseq &product, CScope *scope)

Get the encoding CDS feature of a given protein sequence.

CConstRef< CSeq_feat > GetOverlappingGene(const CSeq_loc &loc, CScope &scope, ETransSplicing eTransSplicing=eTransSplicing_Auto)

vector< TFeatScore > TFeatScores

void GetOverlappingFeatures(const CSeq_loc &loc, CSeqFeatData::E_Choice feat_type, CSeqFeatData::ESubtype feat_subtype, EOverlapType overlap_type, TFeatScores &feats, CScope &scope, const TBestFeatOpts opts=0, CGetOverlappingFeaturesPlugin *plugin=NULL)

Find all features overlapping the location.

@ eGetId_Best

return the "best" gi (uses FindBestScore(), with CSeq_id::CalculateScore() as the score function

CSeq_entry_Handle GetSeq_entryHandle(CDataLoader *loader, const TBlobId &blob_id, EMissing action=eMissing_Default)

Get Seq-entry handle by its blob-id, with possible loading.

CBioseq_Handle GetBioseqHandle(const CSeq_id &id)

Get bioseq handle by seq-id.

CSeq_feat_Handle GetSeq_featHandle(const CSeq_feat &feat, EMissing action=eMissing_Default)

const TDescr & GetDescr(void) const

CConstRef< CBioseq > GetCompleteBioseq(void) const

Get the complete bioseq.

TClass GetClass(void) const

CSeq_entry_Handle GetSeq_entry_Handle(void) const

Get parent Seq-entry handle.

CConstRef< CBioseq_set > GetCompleteBioseq_set(void) const

Return the complete bioseq-set object.

CBioseq_set_Handle GetParentBioseq_set(void) const

Get parent bioseq-set handle.

CBioseq_Handle GetBioseqHandle(const CSeq_id &id) const

Get Bioseq handle from the TSE of this Seq-entry.

CSeq_entry_Handle GetTopLevelEntry(void) const

Get top level Seq-entry handle.

CSeq_entry_Handle GetParentEntry(void) const

Return a handle for the parent seq-entry of the bioseq.

TInst_Length GetInst_Length(void) const

bool IsSetClass(void) const

bool IsSetDescr(void) const

CScope & GetScope(void) const

Get scope this handle belongs to.

CScope & GetScope(void) const

Get scope this handle belongs to.

const TId & GetId(void) const

TObjectType * GetPointer(void) const THROWS_NONE

Get pointer,.

CRef< C > Ref(C *object)

Helper functions to get CRef<> and CConstRef<> objects.

TObjectType * GetPointer(void) THROWS_NONE

Get pointer,.

void Reset(void)

Reset reference object.

#define END_NCBI_SCOPE

End previously defined NCBI scope.

#define BEGIN_NCBI_SCOPE

Define ncbi namespace.

bool IsOssEmpty(CNcbiOstrstream &oss)

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

Convert string to int.

static SIZE_TYPE FindNoCase(const CTempString str, const CTempString pattern, SIZE_TYPE start, SIZE_TYPE end, EOccurrence which=eFirst)

Find the pattern in the specified range of a string using a case insensitive search.

static bool EndsWith(const CTempString str, const CTempString end, ECase use_case=eCase)

Check if a string ends with a specified suffix value.

static bool IsBlank(const CTempString str, SIZE_TYPE pos=0)

Check if a string is blank (has no text).

static void TruncateSpacesInPlace(string &str, ETrunc where=eTrunc_Both)

Truncate whitespace in a string (in-place)

static SIZE_TYPE Find(const CTempString str, const CTempString pattern, ECase use_case=eCase, EDirection direction=eForwardSearch, SIZE_TYPE occurrence=0)

Find the pattern in the string.

static bool EqualCase(const CTempString s1, SIZE_TYPE pos, SIZE_TYPE n, const char *s2)

Case-sensitive equality of a substring with another string.

static bool StartsWith(const CTempString str, const CTempString start, ECase use_case=eCase)

Check if a string starts with a specified prefix value.

static bool EqualNocase(const CTempString s1, SIZE_TYPE pos, SIZE_TYPE n, const char *s2)

Case-insensitive equality of a substring with another string.

static enable_if< is_arithmetic< TNumeric >::value||is_convertible< TNumeric, Int8 >::value, string >::type NumericToString(TNumeric value, TNumToStringFlags flags=0, int base=10)

Convert numeric value to string.

static bool Equal(const CTempString s1, SIZE_TYPE pos, SIZE_TYPE n, const char *s2, ECase use_case=eCase)

Test for equality of a substring with another string.

@ eNocase

Case insensitive compare.

static const char label[]

TKeywords & SetKeywords(void)

Assign a value to Keywords data member.

bool IsSetExtra_accessions(void) const

Check if a value has been assigned to Extra_accessions data member.

void ResetKeywords(void)

Reset Keywords data member.

bool IsSetDiv(void) const

GenBank division Check if a value has been assigned to Div data member.

bool IsSetTaxonomy(void) const

continuation line of organism Check if a value has been assigned to Taxonomy data member.

bool IsSetSource(void) const

source line Check if a value has been assigned to Source data member.

bool IsSetEntry_date(void) const

replaces date Check if a value has been assigned to Entry_date data member.

const TKeywords & GetKeywords(void) const

Get the Keywords member data.

bool IsSetOrigin(void) const

Check if a value has been assigned to Origin data member.

bool IsSetKeywords(void) const

Check if a value has been assigned to Keywords data member.

bool IsSetDate(void) const

OBSOLETE old form Entry Date Check if a value has been assigned to Date data member.

const TStr & GetStr(void) const

Get the variant data.

bool IsSetData(void) const

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

bool IsStr(void) const

Check if variant Str is selected.

bool IsSetDb(void) const

name of database or system Check if a value has been assigned to Db data member.

bool IsSetType(void) const

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

const TTag & GetTag(void) const

Get the Tag member data.

const TData & GetData(void) const

Get the Data member data.

bool IsSetTag(void) const

appropriate tag Check if a value has been assigned to Tag data member.

const TDb & GetDb(void) const

Get the Db member data.

bool IsSetClass(void) const

endeavor which designed this object Check if a value has been assigned to Class data member.

const TClass & GetClass(void) const

Get the Class member data.

bool IsStr(void) const

Check if variant Str is selected.

bool IsSetLabel(void) const

field label Check if a value has been assigned to Label data member.

TData & SetData(void)

Assign a value to Data data member.

const TStr & GetStr(void) const

Get the variant data.

void SetLabel(TLabel &value)

Assign a value to Label data member.

const TData & GetData(void) const

Get the Data member data.

void SetType(TType &value)

Assign a value to Type data member.

void ResetData(void)

Reset Data data member.

void SetData(TData &value)

Assign a value to Data data member.

const TLabel & GetLabel(void) const

Get the Label member data.

const TType & GetType(void) const

Get the Type member data.

bool IsSetData(void) const

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

vector< CStringUTF8 > TStrs

vector< CRef< CUser_field > > TData

E_Choice Which(void) const

Which variant is currently selected.

@ e_not_set

No variant selected.

void SetHeader(THeader &value)

Assign a value to Header data member.

@ eField_id_location_id

location Seq-id

bool IsSetData(void) const

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

E_Choice Which(void) const

Which variant is currently selected.

void SetLocation(TLocation &value)

Assign a value to Location data member.

const TLocation & GetLocation(void) const

Get the Location member data.

E_Choice

Choice variants.

const TData & GetData(void) const

Get the Data member data.

void SetData(TData &value)

Assign a value to Data data member.

const TProduct & GetProduct(void) const

Get the Product member data.

bool IsBiosrc(void) const

Check if variant Biosrc is selected.

bool IsSetProduct(void) const

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

bool IsRna(void) const

Check if variant Rna is selected.

bool IsSetLocation(void) const

feature made from Check if a value has been assigned to Location data member.

@ e_not_set

No variant selected.

bool IsGeneral(void) const

Check if variant General is selected.

const TGeneral & GetGeneral(void) const

Get the variant data.

const TSeq_set & GetSeq_set(void) const

Get the Seq_set member data.

list< CRef< CSeq_entry > > TSeq_set

@ eClass_nuc_prot

nuc acid and coded proteins

bool IsGenbank(void) const

Check if variant Genbank is selected.

list< CRef< CSeqdesc > > Tdata

const TUser & GetUser(void) const

Get the variant data.

TTitle & SetTitle(void)

Select the variant.

bool IsComment(void) const

Check if variant Comment is selected.

const TTitle & GetTitle(void) const

Get the variant data.

bool IsSource(void) const

Check if variant Source is selected.

TGenbank & SetGenbank(void)

Select the variant.

const TId & GetId(void) const

Get the Id member data.

const Tdata & Get(void) const

Get the member data.

const TGenbank & GetGenbank(void) const

Get the variant data.

TComment & SetComment(void)

Select the variant.

TSource & SetSource(void)

Select the variant.

E_Choice

Choice variants.

TUser & SetUser(void)

Select the variant.

E_Choice Which(void) const

Which variant is currently selected.

bool IsSetId(void) const

equivalent identifiers Check if a value has been assigned to Id data member.

bool IsTitle(void) const

Check if variant Title is selected.

const TComment & GetComment(void) const

Get the variant data.

bool IsUser(void) const

Check if variant User is selected.

@ e_User

user defined object

@ e_Comment

a more extensive comment

@ e_not_set

No variant selected.

@ eMol_na

just a nucleic acid

<!DOCTYPE HTML >< html > n< header > n< title > PubSeq Gateway Help Page</title > n< style > n table

bool DoesApplyObjectMatchFieldConstraint(const CApplyObject &object, const string &field_name, CRef< CStringConstraint > string_constraint)

CRef< CCmdComposite > GetPropagateDBLinkCmd(CSeq_entry_Handle entry)

void x_AdjustListPair(vector< CRef< CApplyObject > > prev_list, vector< CRef< CApplyObject > > this_list)

vector< CRef< CApplyObject > > s_GetProtApplyObjectsFeatures(CBioseq_Handle p_bsh, CSeqFeatData::ESubtype constraint_type)

vector< CConstRef< CSeq_feat > > GetRelatedFeatures(const CSeq_feat &obj_feat, CSeqFeatData::ESubtype constraint_type, CRef< CScope > scope)

bool FocusedOnNucleotides(TConstScopedObjects &objects, const CSeq_entry_Handle &tse)

CRef< CCmdComposite > GetCommandFromApplyObject(CApplyObject &obj)

void AddMiscColumnsToTable(CRef< CSeq_table > table, const vector< string > &fields, CSeq_entry_Handle entry)

USING_SCOPE(ncbi::objects)

static const string kStructComment("StructuredComment")

static const string kStructCommentSuffix("StructuredCommentSuffix")

static size_t s_GetMaxRows(const vector< size_t > &rows)

bool DoesObjectMatchFieldConstraint(const CObject &object, const string &field_name, CRef< CStringConstraint > string_constraint, CRef< CScope > scope)

static const string kGenomeProjectId

static const string kStructCommentPrefix("StructuredCommentPrefix")

bool PropagateDBLink(CSeq_entry_Handle entry, CCmdComposite &cmd)

SStaticPair< const char *, CGeneralIDField::EGeneralIDPart > TGeneralIDPart

string GetExistingTextInstruction(EExistingText existing)

bool PropagateDescriptor(CSeq_entry_Handle entry, const CSeqdesc &desc, CCmdComposite &cmd)

vector< CRef< CApplyObject > > GetRelatedFeatureApplyObjects(const CSeq_feat &obj_feat, CSeqFeatData::ESubtype constraint_type, CRef< CScope > scope)

CRef< CSeq_table > GetMiscTableFromSeqEntry(const vector< string > &fields, CSeq_entry_Handle entry)

int GetNumberOfViewedBioseqs(TConstScopedObjects &objects)

void GetViewObjects(IWorkbench *workbench, TConstScopedObjects &objects)

vector< CConstRef< CSeq_feat > > s_GetProtFeatures(CBioseq_Handle p_bsh, CSeqFeatData::ESubtype constraint_type)

bool FocusedOnAll(TConstScopedObjects &objects, const objects::CSeq_entry_Handle &tse)

CRef< CUser_field > MakeTableMetaInfoField(EExistingText rule, bool erase_blanks)

DEFINE_STATIC_ARRAY_MAP(TGenIdPartMap, sm_GenIdMap, s_GenIDPartName)

string MakeTableMetaInfoString(EExistingText rule, bool erase_blanks)

bool IsSeqOrNP(CSeq_entry_Handle entry)

CSeq_entry_Handle s_GetNPParent(CSeq_entry_Handle seh)

static const TGeneralIDPart s_GenIDPartName[]

CStaticArrayMap< string, CGeneralIDField::EGeneralIDPart > TGenIdPartMap

vector< CRef< CMiscSeqTableColumn > > TMiscSeqTableColumnList

constexpr bool empty(list< Ts... >) noexcept

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

const GenericPointer< typename T::ValueType > T2 value

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

#define FOR_EACH_SEQID_ON_BIOSEQ(Itr, Var)

FOR_EACH_SEQID_ON_BIOSEQ EDIT_EACH_SEQID_ON_BIOSEQ.

Utility macros and typedefs for exploring NCBI objects from seqfeat.asn.

bool QualifierNamesAreEquivalent(string name1, string name2)

CRef< CSeqTable_column > AddStringColumnToTable(CRef< CSeq_table > table, string label)

void AddValueToColumn(CRef< CSeqTable_column > column, string value, size_t row, edit::EExistingText existing_text=edit::eExistingText_replace_old)

void FillShortColumns(CRef< objects::CSeq_table > values_table)

#define row(bind, expected)

@ eExistingText_append_semi

@ eExistingText_append_space

@ eExistingText_prefix_colon

@ eExistingText_append_none

@ eExistingText_leave_old

@ eExistingText_prefix_none

@ eExistingText_prefix_space

@ eExistingText_append_colon

@ eExistingText_prefix_comma

@ eExistingText_append_comma

@ eExistingText_prefix_semi

@ eExistingText_replace_old

bool AddValueToString(string &str, const string &value, EExistingText existing_text)

Add text to an existing string, using the "existing_text" directive to combine new text with existing...

Template structure SStaticPair is simlified replacement of STL pair<> Main reason of introducing this...

CRef< CCmdComposite > UpdatemRNAProduct(const objects::CSeq_feat &protein, objects::CScope &scope, string &message)

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