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Showing content from http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/doxyhtml/correct__rna__strand__dlg_8cpp_source.html below:

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

(parent,

, caption, pos,

, style);

SetExtraStyle(wxWS_EX_BLOCK_EVENTS);

GetSizer()->SetSizeHints(

);

wxBoxSizer* itemBoxSizer2 =

wxBoxSizer(wxVERTICAL);

itemCBulkCmdDlg1->SetSizer(itemBoxSizer2);

wxButton* itemButton5 =

wxButton( itemCBulkCmdDlg1,

,

(

), wxDefaultPosition, wxDefaultSize, 0 );

itemBoxSizer2->Add(itemButton5, 0, wxALIGN_CENTER_HORIZONTAL|wxALL, 5);

itemBoxSizer2->Add(

, 0, wxALIGN_CENTER_HORIZONTAL|wxALL, 5);

wxBoxSizer* itemBoxSizer8 =

wxBoxSizer(wxHORIZONTAL);

itemBoxSizer2->Add(itemBoxSizer8, 0, wxALIGN_CENTER_HORIZONTAL|wxALL, 5);

wxButton* itemButton9 =

wxButton( itemCBulkCmdDlg1,

,

(

), wxDefaultPosition, wxDefaultSize, 0 );

itemBoxSizer8->Add(itemButton9, 0, wxALIGN_CENTER_VERTICAL|wxALL, 5);

wxButton* itemButton10 =

wxButton( itemCBulkCmdDlg1,

,

(

), wxDefaultPosition, wxDefaultSize, 0 );

itemBoxSizer8->Add(itemButton10, 0, wxALIGN_CENTER_VERTICAL|wxALL, 5);

wxOK | wxICON_ERROR,

);

any_change =

;

->AddCommand(*flip);

((*it)->IsGenbank()) {

(

.second > second.second);

vector<pair<string,int> > values;

((*it2)->IsGenbank() && (*it2)->GetGenbank().IsSetAccession()) {

= (*it2)->GetGenbank().GetAccession();

stable_sort(values.begin(),values.end(),

);

(

=0;

<values.size();

++)

wxSizer *row_sizer =

wxBoxSizer(wxHORIZONTAL);

row_sizer->Add(stat);

->SetValue(selected);

row_sizer->Add(

);

->GetSize(&row_width, &row_height);

{

,

,

,

,

,

,

};

(tab_pos != string::npos) {

accession = line.

(0, tab_pos);

status = line.

(tab_pos + 1);

(

= pos;

<

&& !found;

++) {

((*it)->IsGenbank()) {

wxString strandcmd =

(

);

wxString strandcmd =

(

);

(!wxFileName::FileExists(strandcmd)) {

wxMessageBox(

(

),

(

), wxOK | wxICON_ERROR,

);

= pos + 25;

wxStringOutputStream strstr;

wxTextOutputStream os(strstr);

(

= pos;

<

;

++) {

((*it)->IsGenbank() && (*it)->GetGenbank().IsSetAccession()) {

os << (*it)->GetGenbank().GetAccession();

wxString cmdline = strstr.GetString();

exit_code = ::wxExecute(cmdline,

, wxEXEC_SYNC | wxEXEC_HIDE_CONSOLE);

wxMessageBox(

(

),

(

), wxOK | wxICON_ERROR,

);

wxMessageBox(

(

),

(

), wxOK | wxICON_ERROR,

);

(

=0;

<

.GetCount();

++)

virtual void ExecuteCmd(CRef< CCmdComposite > cmd)

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 Init()

Initialises member variables.

void x_ProcessRNAStrandLine(const CTempString &line, size_t pos, size_t max)

wxBitmap GetBitmapResource(const wxString &name)

Retrieves bitmap resources.

CCorrectRNAStrandDlg()

Constructors.

ERNAstrand_return_val x_StrandFromString(const string &status)

static bool ShowToolTips()

Should we show tooltips?

wxScrolledWindow * m_SequenceListWindow

vector< ERNAstrand_return_val > m_StatusList

vector< CBioseq_Handle > m_SeqList

~CCorrectRNAStrandDlg()

Destructor.

void OnCancelRnaStrandBtnClick(wxCommandEvent &event)

wxEVT_COMMAND_BUTTON_CLICKED event handler for ID_CANCEL_RNA_STRAND_BTN

wxCheckBox * m_ReverseFeaturesBtn

void x_PopulateAccessionList()

void CreateControls()

Creates the controls and sizers.

void x_AddRow(const string &text, const string &status, bool selected)

vector< wxCheckBox * > m_PickList

wxIcon GetIconResource(const wxString &name)

Retrieves icon resources.

wxBoxSizer * m_SequenceListSizer

void x_ReverseFeatures(CBioseq_Handle bsh, CRef< CCmdComposite > cmd)

void OnRefreshStrandBtnClick(wxCommandEvent &event)

wxEVT_COMMAND_BUTTON_CLICKED event handler for ID_REFRESH_STRAND_BTN

bool Create(wxWindow *parent, wxWindowID id=10299, const wxString &caption=_("Correct RNA Strandedness"), const wxPoint &pos=wxDefaultPosition, const wxSize &size=wxSize(400, 300), long style=wxCAPTION|wxRESIZE_BORDER|wxSYSTEM_MENU|wxCLOSE_BOX|wxTAB_TRAVERSAL)

Creation.

vector< string > m_AccessionList

virtual string GetErrorMessage()

virtual CRef< CCmdComposite > GetCommand()

void OnAutocorrectStrandBtnClick(wxCommandEvent &event)

wxEVT_COMMAND_BUTTON_CLICKED event handler for ID_AUTOCORRECT_STRAND_BTN

string x_StringFromStrand(ERNAstrand_return_val rval)

map< string, CBioseq_Handle > m_SeqMap

namespace ncbi::objects::

CTempString implements a light-weight string on top of a storage buffer whose lifetime management is ...

IWorkbench is the central interface in the application framework.

static const size_t k_NumRNAstrand_strings

USING_SCOPE(ncbi::objects)

bool s_HasGenBankId(CBioseq_Handle bsh)

static const string RNAstrand_strings[]

static bool CompByStrand(const pair< string, int > &first, const pair< string, int > &second)

#define ID_AUTOCORRECT_STRAND_BTN

#define ID_CANCEL_RNA_STRAND_BTN

#define ID_USE_SMART_FOR_STRAND_BTN

#define ID_REFRESH_STRAND_BTN

#define ID_REVERSE_FEATURES_BTN

#define ID_RNA_STRAND_SCROLLEDWINDOW

static DLIST_TYPE *DLIST_NAME() first(DLIST_LIST_TYPE *list)

static SQLCHAR output[256]

void ReverseComplement(const BidirectionalIterator &first, const BidirectionalIterator &last)

#define ITERATE(Type, Var, Cont)

ITERATE macro to sequence through container elements.

#define LOG_POST(message)

This macro is deprecated and it's strongly recomended to move in all projects (except tests) to macro...

void Info(CExceptionArgs_Base &args)

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

Set object to copy of another one.

CSeq_loc * SeqLocRevCmpl(const CSeq_loc &loc, CScope *scope)

Get reverse complement of the seq-loc (?)

CConstRef< CBioseq > GetCompleteBioseq(void) const

Get the complete bioseq.

CScope & GetScope(void) const

Get scope this handle belongs to.

const TInst & GetInst(void) const

CConstRef< CSeq_feat > GetSeq_feat(void) const

Get current seq-feat.

#define END_NCBI_SCOPE

End previously defined NCBI scope.

#define BEGIN_NCBI_SCOPE

Define ncbi namespace.

NCBI_NS_STD::string::size_type SIZE_TYPE

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

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

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

Check if a string starts with a specified prefix value.

CTempString substr(size_type pos) const

Obtain a substring from this string, beginning at a given offset.

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

Case-insensitive equality of a substring with another string.

size_type find(const CTempString match, size_type pos=0) const

Find the first instance of the entire matching string within the current string, beginning at an opti...

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.

static const char label[]

void SetLocation(TLocation &value)

Assign a value to Location data member.

const TLocation & GetLocation(void) const

Get the Location member data.

const TId & GetId(void) const

Get the Id member data.

list< CRef< CSeq_id > > TId

@ eMol_na

just a nucleic acid

Lightweight interface for getting lines of data with minimal memory copying.

static void text(MDB_val *v)

void ReportUsage(const wxString &dialog_name)

Report opening & accepting events in the editing package.

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

Defines classes: CDirEntry, CFile, CDir, CSymLink, CMemoryFile, CFileUtil, CFileLock,...

wxString ToWxString(const string &s)

string ToStdString(const wxString &s)

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