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Showing content from http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/doxyhtml/autodef__options_8cpp_source.html below:

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

user->

().push_back(field);

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

((*it)->IsSetData() && (*it)->GetData().IsBool() && (*it)->GetData().GetBool()) {

(*it)->GetData().IsBool() && (*it)->GetData().GetBool()) {

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

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

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

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

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

field->

().SetBool(

);

field->

().SetStr(

);

user.

().push_back(field);

user.

().push_back(field);

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

vector<string>::iterator sort_it = std::unique(vals.begin(), vals.end());

vals.resize(distance(vals.begin(), sort_it));

(vector<string>, it, vals) {

subsources->

().SetStrs().push_back(*it);

field->

().SetFields().push_back(subsources);

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

vector<string>::iterator sort_it = std::unique(vals.begin(), vals.end());

vals.resize(distance(vals.begin(), sort_it));

(vector<string>, it, vals) {

orgmods->

().SetStrs().push_back(*it);

field->

().SetFields().push_back(orgmods);

user.

().push_back(field);

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

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

CStaticArrayMap< const char *, unsigned int, PNocase > TNameValPairMap

#define AUTODEFGETENUM(Fieldname, Map, Default)

#define INITENUMFIELD(Fieldname)

SStaticPair< const char *, unsigned int > TNameValPair

DEFINE_STATIC_ARRAY_MAP_WITH_COPY(TNameValPairMap, sc_FieldTypeStrsMap, sc_FieldTypes)

const TNameValPair sc_HIVRuleStr[]

const TNameValPair sc_FeatureListTypeStr[]

const TNameValPair sc_MiscFeatRuleStr[]

const TNameValPair sc_FieldTypes[]

void SuppressAllFeatures()

CRef< CUser_field > x_MakeHIVRule() const

CRef< CUser_field > x_MakeNuclearCopyFlag() const

void SuppressFeature(CSeqFeatData::ESubtype subtype)

CRef< CUser_field > x_MakeBooleanField(TFieldType field_type) const

void ClearSuppressedFeatures()

void AddOrgMod(COrgMod::TSubtype subtype)

@ eWholeGenomeShotgunSequence

CRef< CUser_field > x_MakeFeatureListType() const

CBioSource::TGenome m_NuclearCopyFlag

CRef< CUser_field > x_MakeMiscFeatRule() const

string m_CustomFeatureClause

bool x_IsBoolean(TFieldType field_type) const

string GetFieldType(TFieldType field_type) const

TMiscFeatRule m_MiscFeatRule

CRef< CUser_object > MakeUserObject() const

void x_MakeSuppressedFeatures(CUser_object &user) const

string m_TargetedLocusName

void InitFromUserObject(const CUser_object &obj)

TFeatureListType m_FeatureListType

void x_SetSuppressedFeatures(const CUser_field &field)

vector< CSeqFeatData::ESubtype > TSuppressedFeatureSubtypes

CRef< CUser_field > x_MakeMaxMods() const

CBioSource::TGenome GetNuclearCopyFlag() const

CBioSource::TGenome m_ProductFlag

void x_SetModifierList(const CUser_field &field)

CBioSource::TGenome GetProductFlag() const

vector< COrgMod::TSubtype > TOrgMods

TSuppressedFeatureSubtypes m_SuppressedFeatureSubtypes

@ eOptionFieldType_KeepPrecursorRNA

@ eOptionFieldType_Keep3UTRs

@ eOptionFieldType_KeepuORFs

@ eOptionFieldType_TargetedLocusName

@ eOptionFieldType_MaxMods

@ eOptionFieldType_ModifierList

@ eOptionFieldType_KeepExons

@ eOptionFieldType_KeepAfterSemicolon

@ eOptionFieldType_UseLabels

@ eOptionFieldType_LeaveParenthetical

@ eOptionFieldType_SuppressAlleles

@ eOptionFieldType_IncludeCountryText

@ eOptionFieldType_KeepLTRs

@ eOptionFieldType_ProductFlag

@ eOptionFieldType_DoNotApplyToAff

@ eOptionFieldType_UseNcRNAComment

@ eOptionFieldType_SuppressLocusTags

@ eOptionFieldType_KeepIntrons

@ eOptionFieldType_AllowModAtEndOfTaxname

@ eOptionFieldType_SpecifyNuclearProduct

@ eOptionFieldType_CustomFeatureClause

@ eOptionFieldType_Unknown

@ eOptionFieldType_GeneClusterOppStrand

@ eOptionFieldType_NuclearCopyFlag

@ eOptionFieldType_SuppressFeatureAltSplice

@ eOptionFieldType_DoNotApplyToCf

@ eOptionFieldType_HIVRule

@ eOptionFieldType_SuppressMobileElementSubfeatures

@ eOptionFieldType_KeepMobileElements

@ eOptionFieldType_FeatureListType

@ eOptionFieldType_MiscFeatRule

@ eOptionFieldType_KeepRepeatRegion

@ eOptionFieldType_DoNotApplyToNr

@ eOptionFieldType_SuppressMiscFeatureSubfeatures

@ eOptionFieldType_KeepMiscRecomb

@ eOptionFieldType_KeepRegulatoryFeatures

@ eOptionFieldType_Keep5UTRs

@ eOptionFieldType_SuppressedFeatures

@ eOptionFieldType_UseFakePromoters

@ eOptionFieldType_DoNotApplyToSp

@ eOptionFieldType_AltSpliceFlag

CRef< CUser_field > x_MakeCustomFeatureClause() const

void x_MakeModifierList(CUser_object &user) const

bool m_BooleanFlags[eOptionFieldMax]

bool GetSpecifyNuclearProduct() const

void AddSubSource(CSubSource::TSubtype subtype)

CRef< CUser_field > x_MakeProductFlag() const

bool IsFeatureSuppressed(CSeqFeatData::ESubtype subtype) const

CRef< CUser_field > x_MakeTargetedLocusName() const

vector< CSubSource::TSubtype > TSubSources

static string GetOrganelleByGenome(unsigned int genome)

static CBioSource::EGenome GetGenomeByOrganelle(const string &organelle, NStr::ECase use_case=NStr::eCase, bool starts_with=false)

static string GetSubtypeName(TSubtype stype, EVocabulary vocabulary=eVocabulary_raw)

static TSubtype GetSubtypeValue(const string &str, EVocabulary vocabulary=eVocabulary_raw)

@ 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.

static CTempString SubtypeValueToName(ESubtype eSubtype)

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

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

static TSubtype GetSubtypeValue(const string &str, EVocabulary vocabulary=eVocabulary_raw)

static string GetSubtypeName(CSubSource::TSubtype stype, EVocabulary vocabulary=eVocabulary_raw)

void SetObjectType(EObjectType obj_type)

@ eObjectType_AutodefOptions

#define ITERATE(Type, Var, Cont)

ITERATE macro to sequence through container elements.

#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 IsBlank(const CTempString str, SIZE_TYPE pos=0)

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

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

Case-insensitive equality of a substring with another string.

const TStr & GetStr(void) const

Get the variant data.

bool IsStrs(void) const

Check if variant Strs is selected.

const TStrs & GetStrs(void) const

Get the variant data.

const TData & GetData(void) const

Get the Data member data.

const TFields & GetFields(void) const

Get the variant data.

vector< CRef< CUser_field > > TFields

bool IsFields(void) const

Check if variant Fields is selected.

bool IsStr(void) const

Check if variant Str is selected.

void SetClass(const TClass &value)

Assign a value to Class data member.

TData & SetData(void)

Assign a value to Data data member.

void SetLabel(TLabel &value)

Assign a value to Label data member.

const TData & GetData(void) const

Get the Data member data.

void SetData(TData &value)

Assign a value to Data data member.

bool IsSetData(void) const

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

vector< CStringUTF8 > TStrs

vector< CRef< CUser_field > > TData

constexpr auto sort(_Init &&init)

const GenericPointer< typename T::ValueType > T2 value

Miscellaneous common-use basic types and functionality.

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

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