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NCBI C++ ToolKit: src/gui/widgets/seq_graphic/aggregate_feature_track.cpp Source File

=

;

);

vector<string> values;

.reserve(values.size());

(

&it : values) {

vector<string> values;

.reserve(values.size());

(

&it : values) {

.push_back(subtype);

section +=

;

section +=

;

view =

.GetReadView(section);

(

&it :

) {

(

&it : subtypes) {

title =

;

section +=

;

section +=

;

view =

.GetReadView(section);

feat_track->SetAnnot(iter->first);

feat_track->SetFeatTypes(

);

feat_track->SetFeatSubtypes(subtypes);

(!iter->second.empty()) {

feat_track->SetTitle(iter->second);

tracks[iter->first] = feat_track.

();

config_set->

().push_back(

(settings, track_proxy,

));

static const string kTrackName

CAggregateFeatureTrack.

static const string kBaseKey

CAggregateFeatureTrackFactory()

CAggregateFeatureTrackFactory.

virtual string GetExtensionIdentifier() const

returns the unique human-readable identifier for the extension the id should use lowercase letters se...

virtual string GetExtensionLabel() const

returns a displayable label for this extension ( please capitalize the key words - "My Extension" )

virtual CRef< objects::CTrackConfigSet > GetSettings(const string &profile, const TKeyValuePairs &settings, const CTempTrackProxy *track_proxy) const

virtual void GetMatchedAnnots(const TAnnotMetaDataList &src_annots, const ILayoutTrackFactory::SExtraParams &params, TAnnotNameTitleMap &out_annots) const

virtual TTrackMap CreateTracks(SConstScopedObject &object, ISGDataSourceContext *ds_context, CRenderingContext *r_cntx, const SExtraParams &params=SExtraParams(), const TAnnotMetaDataList &src_annots=TAnnotMetaDataList()) const

Create a biological region track based on the input object and extra parameters.

CAggregateFeatureTrack - combines a set of features into a single track.

static CTrackTypeInfo m_TypeInfo

std::vector< objects::CSeqFeatData::E_Choice > TTypeVec

void SetFeatSubtypes(const TSubtypeVec &subtypes)

static vector< string > GetSubtypeListAsString(const std::string &subkey)

virtual string GetFullTitle() const

get a more meaningful title.

static TTypeMap x_GetFeatTypeMap()

Initializes the feature name to type map.

set< objects::CSeqFeatData::ESubtype > m_subtypes

CAggregateFeatureTrack(CSGFeatureDS *ds, CRenderingContext *r_cntx)

std::map< std::string, objects::CSeqFeatData::E_Choice > TTypeMap

static TSubtypeVec GetSubtypeList(const std::string &subkey)

virtual void GetFeatSubtypes(set< objects::CSeqFeatData::ESubtype > &subtypes) const

static TTypeVec GetTypeList(const std::string &subkey)

static void x_GetSubkeyStringVec(const string &subkey, const string &field, vector< string > &values)

Reads the string vector for the specified subkey from the registry.

virtual const CTrackTypeInfo & GetTypeInfo() const

std::vector< objects::CSeqFeatData::ESubtype > TSubtypeVec

void SetFeatTypes(const TTypeVec &types)

CRef< objects::CTrackConfig > x_GetSettings(const TKeyValuePairs &settings, const CTempTrackProxy *track_proxy, bool is_intron_track) const

CFeatureTrack::ELayout m_DefaultLayout

ELinkedFeatDisplay m_DefaultLinkedFeat

objects::SAnnotSelector m_FeatSel

@ eLayout_ExpandedLayered

show all features with layered layout

ELinkedFeatDisplay m_LinkedFeat

static CGuiRegistry & GetInstance()

access the application-wide singleton

string GetTitle() const

get the track title.

class CRegistryReadView provides a nested hierarchical view at a particular key.

void GetStringVec(const string &key, vector< string > &val) const

CRenderingContext offers the basic context and utility methods for rendering layout objects in featur...

void SetSortBy(const string &sortby)

void SetFilter(const string &filter)

CSGFeatureDS inline method.

void SetGraphLevels(const string &annot)

void SetDepth(int depth)

Set the annotation selector resolving depth.

void SetAdaptive(bool flag)

@ 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.

CTrackTypeInfo - holds description of a layout track type.

const string & GetDescr() const

const string & GetId() const

static void GetMatchedAnnots(const TAnnotMetaDataList &src_annots, const vector< string > &target_annots, const string &annot_type, const string &track_type, TAnnotNameTitleMap &out_annots)

Help function to find matched annotations.

ISGDSManager is seqgraphic data source manage that serves as an data source context.

virtual CIRef< ISGDataSource > GetDS(const string &type, SConstScopedObject &object)=0

Get a seqgraphic data source instance of the specified type.

iterator_bool insert(const value_type &val)

container_type::value_type value_type

iterator_bool insert(const value_type &val)

static const struct type types[]

#define ITERATE(Type, Var, Cont)

ITERATE macro to sequence through container elements.

static bool IsUnnamed(const string &annot)

check if a given annotation is a unnamed annotation.

TObjectType * GetPointer(void) THROWS_NONE

Get pointer,.

#define END_NCBI_SCOPE

End previously defined NCBI scope.

#define BEGIN_NCBI_SCOPE

Define ncbi namespace.

static string & ToLower(string &str)

Convert string to lower case – string& version.

Tdata & Set(void)

Assign a value to data member.

@ e_Het

cofactor, prosthetic grp, etc, bound to seq

@ e_Region

named region (globin locus)

@ e_Seq

to annotate origin from another seq

@ e_Txinit

transcription initiation

@ e_Num

a numbering system

@ e_Pub

publication applies to this seq

@ e_User

user defined structure

@ e_Rsite

restriction site (for maps really)

@ e_Comment

just a comment

@ e_Non_std_residue

non-standard residue here in seq

void GetSubtypesForType(set< objects::CSeqFeatData::ESubtype > &subtypes, objects::CSeqFeatData::E_Choice feat)

const struct ncbi::grid::netcache::search::fields::SUBKEY subkey

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