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Showing content from http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/doxyhtml/autodef__with__tax_8cpp_source.html below:

NCBI C++ ToolKit: src/objtools/edit/autodef_with_tax.cpp Source File

(

&& !options) {

(

->IsSet() &&

->GetSet().GetCompleteBioseq_set()->NeedsDocsumTitle()) {

found_existing =

;

((*it)->IsTitle()) {

(*it)->SetTitle(defline);

found_existing =

;

(!found_existing) {

bsseh.

().Set().push_back(new_desc);

joined_org =

;

rq->SetJoin().Set().push_back(

(

, taxid));

(rq->IsJoin() && rq->GetJoin().Get().size() > 0) {

CTaxon3_reply::TReply::const_iterator reply_it = reply->GetReply().begin();

(reply_it != reply->GetReply().end()) {

((*reply_it)->IsData()

&& (*reply_it)->GetData().GetOrg().IsSetTaxname()) {

joined_org = (*reply_it)->GetData().GetOrg().GetTaxname();

feature_clauses;

org_desc + feature_clauses;

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.

CConstRef< CUser_object > GetOptionsForSet(CBioseq_set_Handle set)

static bool RegeneratePopsetTitles(CSeq_entry_Handle se)

string GetDocsumDefLine(CSeq_entry_Handle se)

static string GetDocsumOrgDescription(CSeq_entry_Handle se)

static bool RegenerateDefLines(CSeq_entry_Handle se)

void SetOptionsObject(const CUser_object &user)

void AddSources(CSeq_entry_Handle se)

static bool RegenerateSequenceDefLines(CSeq_entry_Handle se)

string GetOneFeatureClauseList(CBioseq_Handle bh, unsigned int genome_val)

CBioseq_set_EditHandle –.

virtual CRef< CTaxon3_reply > SendRequest(const CTaxon3_request &request)

@ eObjectType_AutodefOptions

EObjectType GetObjectType() const

static const char si[8][64]

#define TAX_ID_TO(T, tax_id)

#define NON_CONST_ITERATE(Type, Var, Cont)

Non constant version of ITERATE macro.

SStrictId_Tax::TId TTaxId

Taxon id type.

void SetDescr(TDescr &v) const

@ fIncludeGivenEntry

Include the top (given) entry.

@ fRecursive

Iterate recursively.

void Reset(void)

Reset reference object.

#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.

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.

TGenome GetGenome(void) const

Get the Genome member data.

bool IsSetOrg(void) const

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

const TOrg & GetOrg(void) const

Get the Org member data.

bool IsSetGenome(void) const

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

list< CRef< CSeqdesc > > Tdata

const TUser & GetUser(void) const

Get the variant data.

TTitle & SetTitle(void)

Select the variant.

const TSource & GetSource(void) const

Get the variant data.

@ e_User

user defined object

@ e_Source

source of materials, includes Org-ref

@ eMol_na

just a nucleic acid

TRequest & SetRequest(void)

Assign a value to Request data member.

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