Home - News ( United States | United Kingdom | Italy | Germany ) - Football scores

Showing content from http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/doxyhtml/correct__genes__dialog_8cpp_source.html below:

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

(parent,

, caption, pos,

, style);

SetExtraStyle(wxWS_EX_BLOCK_EVENTS);

GetSizer()->SetSizeHints(

);

wxBoxSizer* itemBoxSizer2 =

wxBoxSizer(wxVERTICAL);

itemCBulkCmdDlg1->SetSizer(itemBoxSizer2);

=

wxCheckBox( itemCBulkCmdDlg1,

,

(

), wxDefaultPosition, wxDefaultSize, 0 );

itemBoxSizer2->Add(

, 0, wxALIGN_CENTER_HORIZONTAL|wxALL, 5);

=

wxCheckBox( itemCBulkCmdDlg1,

,

(

), wxDefaultPosition, wxDefaultSize, 0 );

itemBoxSizer2->Add(

, 0, wxALIGN_CENTER_HORIZONTAL|wxALL, 5);

=

wxCheckBox( itemCBulkCmdDlg1,

,

(

), wxDefaultPosition, wxDefaultSize, 0 );

->SetValue(

);

itemBoxSizer2->Add(

, 0, wxALIGN_CENTER_HORIZONTAL|wxALL, 5);

wxArrayString m_FeatureChoiceStrings;

m_FeatureChoiceStrings.Add(

(

));

m_FeatureChoiceStrings.Add(

(

));

m_FeatureChoiceStrings.Add(

(

));

m_FeatureChoiceStrings.Add(

(

));

m_FeatureChoiceStrings.Add(

(

));

=

wxRadioBox( itemCBulkCmdDlg1,

, wxEmptyString, wxDefaultPosition, wxDefaultSize, m_FeatureChoiceStrings, 1, wxRA_SPECIFY_ROWS );

itemBoxSizer2->Add(

, 0, wxALIGN_CENTER_HORIZONTAL|wxALL, 5);

=

wxCheckBox( itemCBulkCmdDlg1,

,

(

), wxDefaultPosition, wxDefaultSize, 0 );

itemBoxSizer2->Add(

, 0, wxALIGN_CENTER_HORIZONTAL|wxALL, 5);

itemBoxSizer2->Add(

, 0, wxALIGN_CENTER_HORIZONTAL|wxALL, 5);

itemBoxSizer2->Add(

, 0, wxALIGN_CENTER_HORIZONTAL|wxALL, 5);

report_msg =

;

new_gene->

(*list[0]);

(

->GetValue()) {

report_msg = this_msg;

vector<CSeq_feat_Handle> feats;

vector<CSeq_feat_Handle> &genes = feat_to_genes[fh];

(

ii = 0; ii < genes.size(); ii++)

new_gene->

(*(genes[ii].GetOriginalSeq_feat()));

(

->GetValue()) {

report_msg += this_msg;

report_msg +=

+ cds_label +

;

report->SetTitle(

(

));

report->Show(

);

changed =

;

->Assign(*cds.

());

interval->

().SetId(*

);

changed =

;

log_msg =

+ seq_label +

+gene_label+

;

log_msg =

+ seq_label +

+ gene_label +

;

log_msg +=

+ cds_label +

;

log_msg +=

+ seq_label +

+ gene_label +

;

log_msg +=

+ cds_label +

;

vector<CConstRef<CSeq_feat> > list;

=

;

sel_srv->GetActiveObjects(

);

=

;

(

->GetData().IsGene()) {

=

;

=

;

(!gene || !other) {

=

;

list.push_back(gene);

list.push_back(other);

vector<CConstRef<CSeq_feat> > constrained;

constraint_field;

(constraint_field_panel)

constraint_field = constraint_field_panel->

();

constraint_field = constraint_field_type;

constraint_field =

+ constraint_field;

(

&&

->IsSetData() &&

->GetData().GetSubtype() ==

) {

constrained.push_back(ref);

(

&feat : feats)

&loc = feat.GetLocation();

(used_genes.

(*gene) != used_genes.

())

feat_to_genes[feat].push_back(*gene);

used_genes.

(*gene);

(

&feat : feats)

(feat_to_genes.find(feat) != feat_to_genes.end())

&loc = feat.GetLocation();

(used_genes.

(*gene) != used_genes.

())

dist_to_feat_to_genes[diff][feat].push_back(*gene);

(

&it : dist_to_feat_to_genes)

(

&f_to_g : it.second)

(feat_to_genes.find(feat) != feat_to_genes.end())

(

&gene : f_to_g.second)

(used_genes.

(gene) != used_genes.

())

feat_to_genes[feat].push_back(gene);

used_genes.

(gene);

@ eExtreme_Positional

numerical value

@ eExtreme_Biological

5' and 3'

void GetLabel(string *label, ELabelType type, bool worst=false) const

objects::CSeq_entry_Handle m_TopSeqEntry

bool Create(wxWindow *parent, wxWindowID id, const wxString &title, const wxPoint &pos=wxDefaultPosition, const wxSize &size=wxDefaultSize, long style=wxDEFAULT_FRAME_STYLE, const wxString &name=wxFrameNameStr)

bool GetTopLevelSeqEntryAndProcessor()

void SetSelection(int page)

string GetFieldType(void) const

CFieldNamePanel * GetFieldNamePanel(void)

CRef< edit::CStringConstraint > GetStringConstraint(void)

wxIcon GetIconResource(const wxString &name)

Retrieves icon resources.

wxCheckBox * m_MatchStrand

void Init()

Initialises member variables.

bool Create(wxWindow *parent, wxWindowID id=10416, const wxString &caption=_("Correct Genes"), const wxPoint &pos=wxDefaultPosition, const wxSize &size=wxSize(400, 300), long style=wxCAPTION|wxRESIZE_BORDER|wxSYSTEM_MENU|wxCLOSE_BOX|wxTAB_TRAVERSAL)

Creation.

CCorrectGenesDialog()

Constructors.

CConstraintPanel * m_Constraint

bool x_TestGeneForFeature(const CSeq_loc &gene_loc, const CSeq_loc &feat_loc, CScope &scope, bool same_strand, bool &exact, TSeqPos &diff)

vector< CConstRef< CSeq_feat > > x_GetConstrainedList()

string x_CorrectOnePair(const CSeq_feat &cds, CSeq_feat &gene, const string &seq_label, CScope &scope)

wxCheckBox * m_MatchInterval

bool x_CorrectPairStrand(const CSeq_loc &cds, CSeq_loc &gene)

wxCheckBox * m_OnlySelected

void x_FindNonExactMatches(const vector< CSeq_feat_Handle > &feats, CScope &scope, bool same_strand, map< CSeq_feat_Handle, vector< CSeq_feat_Handle > > &feat_to_genes, set< CSeq_feat_Handle > &used_genes)

static bool ShowToolTips()

Should we show tooltips?

void CreateControls()

Creates the controls and sizers.

bool x_CorrectPairInterval(const CSeq_loc &cds, CSeq_feat &gene, CScope *scope)

virtual CRef< CCmdComposite > GetCommand()

wxBitmap GetBitmapResource(const wxString &name)

Retrieves bitmap resources.

vector< CConstRef< CSeq_feat > > x_GetSelectedPair()

COkCancelPanel * m_OkCancel

~CCorrectGenesDialog()

Destructor.

virtual string GetErrorMessage()

void x_FindExactMatches(const vector< CSeq_feat_Handle > &feats, CScope &scope, bool same_strand, map< CSeq_feat_Handle, vector< CSeq_feat_Handle > > &feat_to_genes, set< CSeq_feat_Handle > &used_genes)

wxRadioBox * m_FeatureChoice

virtual string GetFieldName(const bool subfield=false)=0

Returns the name of the field as selected in the panel.

void SetText(const wxString &text)

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

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

namespace ncbi::objects::

IWorkbench is the central interface in the application framework.

iterator_bool insert(const value_type &val)

const_iterator find(const key_type &key) const

const_iterator end() const

USING_SCOPE(ncbi::objects)

unsigned int TSeqPos

Type for sequence locations and lengths.

#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.

CIRef< T > GetServiceByType()

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

vector< SConstScopedObject > TConstScopedObjects

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

Set object to copy of another one.

bool IsPartialStart(ESeqLocExtremes ext) const

check start or stop of location for e_Lim fuzz

ENa_strand GetStrand(void) const

Get the location's strand.

TSeqPos GetStart(ESeqLocExtremes ext) const

Return start and stop positions of the seq-loc.

const CSeq_id * GetId(void) const

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

void ResetStrand(void)

Reset the strand on this location.

void SetPartialStart(bool val, ESeqLocExtremes ext)

set / remove e_Lim fuzz on start or stop (lt/gt - indicating partial interval)

void SetStrand(ENa_strand strand)

Set the strand for all of the location's ranges.

void SetPartialStop(bool val, ESeqLocExtremes ext)

bool IsPartialStop(ESeqLocExtremes ext) const

TSeqPos GetStop(ESeqLocExtremes ext) const

sequence::ECompare Compare(const CSeq_loc &loc1, const CSeq_loc &loc2, CScope *scope)

Returns the sequence::ECompare containment relationship between CSeq_locs.

TSeqPos GetCoverage(const CSeq_loc &loc, CScope *scope)

Get number of unique bases in the location.

CRef< CSeq_loc > Seq_loc_Subtract(const CSeq_loc &loc1, const CSeq_loc &loc2, CSeq_loc::TOpFlags flags, CScope *scope)

Subtract the second seq-loc from the first one.

CRef< CSeq_loc > Seq_loc_Add(const CSeq_loc &loc1, const CSeq_loc &loc2, CSeq_loc::TOpFlags flags, CScope *scope)

Add two seq-locs.

@ eContains

First CSeq_loc contains second.

@ eOverlap

CSeq_locs overlap.

@ eSame

CSeq_locs contain each other.

@ eContained

First CSeq_loc contained by second.

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)

CConstRef< CBioseq > GetCompleteBioseq(void) const

Get the complete bioseq.

void Reset(void)

Reset reference object.

#define END_NCBI_SCOPE

End previously defined NCBI scope.

#define BEGIN_NCBI_SCOPE

Define ncbi namespace.

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

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

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

Check if a string starts with a specified prefix value.

void ResetPartial(void)

Reset Partial data member.

void SetLocation(TLocation &value)

Assign a value to Location data member.

bool IsCdregion(void) const

Check if variant Cdregion is selected.

void SetPartial(TPartial value)

Assign a value to Partial data member.

const TLocation & GetLocation(void) const

Get the Location member data.

const TData & GetData(void) const

Get the Data member data.

bool IsSetExcept(void) const

something funny about this? Check if a value has been assigned to Except data member.

const TExcept_text & GetExcept_text(void) const

Get the Except_text member data.

bool IsSetExcept_text(void) const

explain if except=TRUE Check if a value has been assigned to Except_text data member.

TExcept GetExcept(void) const

Get the Except member data.

ENa_strand

strand of nucleic acid

void GetViewObjects(IWorkbench *workbench, TConstScopedObjects &objects)

const struct ncbi::grid::netcache::search::fields::SIZE size

static int match(PCRE2_SPTR start_eptr, PCRE2_SPTR start_ecode, uint16_t top_bracket, PCRE2_SIZE frame_size, pcre2_match_data *match_data, match_block *mb)

string GetTextObjectDescription(const CSeq_feat &sf, CScope &scope)

wxString ToWxString(const string &s)

RetroSearch is an open source project built by @garambo | Open a GitHub Issue

Search and Browse the WWW like it's 1997 | Search results from DuckDuckGo

HTML: 3.2 | Encoding: UTF-8 | Version: 0.7.4