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Public Member Functions |
| MyChild (wxWindow *parent, const wxString &title, const wxPoint &pos, const wxSize &size, const long style) |
| Constructor.
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| ~MyChild () |
| Destructor.
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virtual void | OnAA_none (wxCommandEvent &event) |
| "Display no amino acids" event handler
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virtual void | OnAA_known (wxCommandEvent &event) |
| "Display only known amino acids" event handler
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virtual void | OnAA_all (wxCommandEvent &event) |
| "Display amino acids for all reading frames" event handler
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virtual void | OnAA_three (wxCommandEvent &event) |
| "Display three-letter amino acids" event handler
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virtual void | OnAA_one (wxCommandEvent &event) |
| "Display one-letter amino acids" event handler
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virtual void | OnAA_three_1 (wxCommandEvent &event) |
| "Display amino acids, reading frame 1" event handler
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virtual void | OnAA_three_2 (wxCommandEvent &event) |
| "Display amino acids, reading frame 2" event handler
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virtual void | OnAA_three_3 (wxCommandEvent &event) |
| "Display amino acids, reading frame 3" event handler
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virtual void | OnAA_three_M1 (wxCommandEvent &event) |
| "Display amino acids, reading frame -1" event handler
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virtual void | OnAA_three_M2 (wxCommandEvent &event) |
| "Display amino acids, reading frame -2" event handler
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virtual void | OnAA_three_M3 (wxCommandEvent &event) |
| "Display amino acids, reading frame -3" event handler
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virtual void | OnAA_setit (int mode) |
| Sets the amino acid display mode (called by the OnAA_ event handlers).
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virtual void | OnActivate (wxActivateEvent &event) |
| Activation event handler.
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virtual void | Undo (wxCommandEvent &event) |
| Undo event handler.
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virtual void | Redo (wxCommandEvent &event) |
| Redo event handler (not implemented).
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virtual void | updateUndoMenu () |
| Updates the undo menu item.
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virtual void | OnMarkAll (wxCommandEvent &event) |
| "Mark all" (Ctrl-A) event handler
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virtual void | OnTransformSequence (wxCommandEvent &event) |
| "Transform sequence" event handler
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virtual void | OnExtractAA (wxCommandEvent &event) |
| "Extract amino acids" event handler
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virtual void | OnFind (wxCommandEvent &event) |
| "Find" event handler
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virtual void | OnFileSave (wxCommandEvent &WXUNUSED(event)) |
| "Save"/"Store" event handler
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virtual void | OnQuit (wxCommandEvent &event) |
| "Quit" event handler
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virtual void | OnCut (wxCommandEvent &event) |
| Cut event handler.
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virtual void | OnCopy (wxCommandEvent &event) |
| Copy event handler.
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virtual void | OnPaste (wxCommandEvent &event) |
| Paste event handler.
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virtual void | OnViewMode (wxCommandEvent &event) |
| Switch to fullscreen plasmid map event handler.
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virtual void | OnEditMode (wxCommandEvent &event) |
| Sqitch to edit mode event handler.
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virtual void | OnCircularLinear (wxCommandEvent &event) |
| Toggle circular/linear event handler.
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virtual void | OnCopyToNew (wxCommandEvent &event) |
| "Copy as new sequence" event handler
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virtual void | OnAsNewFeature (wxCommandEvent &event) |
| "Selection as new feature" event handler
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virtual void | OnPrintImage (wxCommandEvent &event) |
| Print image event handler.
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virtual void | OnPrintRestrictionList (wxCommandEvent &event) |
| Print restriction list event handler.
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virtual void | OnRestriction (wxCommandEvent &event) |
| Restriction event handler.
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virtual void | OnHelp (wxCommandEvent &event) |
| Help event handler.
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virtual void | OnORFs (wxCommandEvent &event) |
| "Show/hide open reading frames" event handler
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virtual void | OnEditORFs (wxCommandEvent &event) |
| Change open reading frame settings event handler.
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virtual void | OnSeqPrint (wxCommandEvent &event) |
| Print sequence event handler.
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virtual void | OnPrintReport (wxCommandEvent &event) |
| "Print report" event handler
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virtual void | OnToggleFeatures (wxCommandEvent &event) |
| Feature display on/off event handler.
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virtual void | OnToggleRestriction (wxCommandEvent &event) |
| "Restriction enzymes in sequence on/off" event handler
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virtual void | OnToggleIDNA (wxCommandEvent &event) |
| Inverse DNA display event handler.
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virtual void | OnRunPCR (wxCommandEvent &event) |
| PCR event handler.
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virtual void | OnZoom (wxCommandEvent &ev) |
| Zoom event handler.
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virtual void | OnUpdateRefresh (wxUpdateUIEvent &event) |
| Update/Refresh event handler.
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virtual void | OnSequencingPrimer (wxCommandEvent &WXUNUSED(event)) |
| "Find sequencing primers" event handler
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virtual void | OnRemoveSequencingPrimers (wxCommandEvent &WXUNUSED(event)) |
| "Remove sequencing primers" event handler
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virtual void | OnAutoAnnotate (wxCommandEvent &WXUNUSED(event)) |
| Automatic annotation event handler.
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virtual void | OnSpeak (wxCommandEvent &WXUNUSED(event)) |
| Speak sequence event handler.
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virtual void | OnSiRNA (wxCommandEvent &WXUNUSED(event)) |
| siRNA event handler
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virtual void | OnFontsize (wxCommandEvent &event) |
| Fontsize event handler.
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virtual void | OnDummy (wxCommandEvent &WXUNUSED(event)) |
virtual void | initme () |
| Initializes the module.
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virtual void | initPanels () |
| Initializes the panels.
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virtual wxString | getName () |
| Returns the module name.
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virtual void | EnforceRefesh () |
| Force display refresh.
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virtual void | updateSequenceCanvas (bool remember=false) |
| Refresh the sequence display.
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virtual wxString | doExtractAA (bool coding=true) |
| Extract amino acid sequence from DNA.
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virtual bool | runRestriction (wxString s) |
| Run the restriction.
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virtual void | addFragmentsToGel (wxString title, wxArrayInt &cuts, TVirtualGel *gel, TRestrictionEditor &ed, bool partial) |
| Add restriction fragments to gel.
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virtual MyChild * | doTransformSequence (bool inNewVector, bool complement, bool invers) |
| Transform the sequence.
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Public Attributes |
TVectorTree * | treeBox |
| Pointer to the sequence properties tree structure.
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TURLtext * | propBox |
| Pointer to the properties text box.
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PlasmidCanvas * | cPlasmid |
| Pointer to the plasmid canvas.
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MySplitter * | sw |
MySplitter * | swu |
MySplitter * | swl |
bool | showORFs |
bool | viewMode |
int | sp1 |
int | sp2 |
int | aa_offset |
int | ly |
int | aa_state |
int | aa_disp |
int | orf_mode |
Protected Member Functions |
virtual void | updateToolbar () |
| Set the toolbar of this module.
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virtual void | initToolbar () |
| Setup the toolbar for this module.
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virtual void | initMenus () |
| Initialize the menus.
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void | add_siRNA (int item) |
int | add_siRNA_sub (wxString s, int pos) |
Protected Attributes |
wxChoice * | fontsize |