4. The main menu | ![]() |
From the VEGA main menu, you can select the most important functions. The item layout is organized in menu bar, menu and sub-menu. Please note that the CmdName column contains the command name, that must be used with SendVegaCmd program to activate the menu functions in batch files (click here for more information).
4.1 File menu
Item | Subitem | Accelerator | CmdName | Description |
New | Ctrl+N | mNew | deletes all objects (molecules, surfaces, etc). A confirmation request is shown. | |
Open | Ctrl+O | mOpen | opens a new molecule. The multiselection is allowed | |
Save As... | Ctrl+S | mSave | saves the molecule/assembly. | |
Compression | None | - | mCmpNone | allows to select the compression mode (none, BZip2, GZip and Z Compress), that is used when the molecule is saved (see Save As...). If you select none, the saved file will be uncompressed. |
BZip2 | - | mCmpBz2 | ||
GZip | - | mCmpGz | ||
Z-Compress | - | mCmpZ | ||
Connectivity | - | mConnect | if checked, creates the connectivity when you save a molecule (see Save As ...). | |
Save Bmb | - | mSaveBmp | saves the GL window into a bitmap file. | |
Ctrl+P | mPrint | makes the hardcopy of the current 3D window rappresentation. | ||
Demo mode | Run | Ctrl+D | mDemoStart | stars the demo. |
Stop | - | mDemoStop | stops the demo. | |
Music | - | mDemoMusic | if checked, plays the background music during the demo execution. | |
Titles | - | mDemoTitles | if checked, shows the subtitles during the demo execution. | |
Exit | ESC | mExit | closes VEGA. If a molecule is loaded, a requester is shown. |
4.2 Edit menu
Item | Subitem | Accelerator | CmdName | Description |
Remove | Hydrogens | - | mRemoveHydrog | removes all hydrogens from the molecule. |
Water | - | mRemoveWater | removes water molecules from the assembly. | |
Surface | - | mSurfRemove | removes the calculated surface. | |
Ren. Residues | - | mRenumberRes | renumbers the residue sequence. | |
Normalize | - | mNormalize | normalizes the coordinates. | |
Copy Bmp | CopyBmp | copies the current 3D view into the clipboard using the bitmap format |
4.3 View menu
Item | Subitem | Accelerator | CmdName | Description |
Display | Wireframe | V | mShowWire | switches the current display mode in Wireframe, Van Der Waals with vectors, Van der Waals solid, CPK with vectors and CPK solid. |
VdW | mShowVdwWire | |||
VdW Solid | mShowVdw | |||
CPK | mShowCpkWire | |||
CPK Solid | mShowCpk | |||
Color | By atom | - | mColorByAtom | sets the molecule color by atom. |
By molecule | - | mColorByMol | sets the molecule color by molecue. | |
Label atom | Off | - | mLblOff | no atom labels. |
Name | - | mLblAtmName | shows the atom labels by name. | |
Element | - | mLblAtmElement | shows the atom labels by element. | |
Number | - | mLblAtmNumber | shows the atom labels by atom number. | |
Type | - | mLblAtmType | shows the atom labels by atom type (force field). | |
Charge | - | mLblAtmCharge | shows the atom labels by atom charge. | |
Reset | - | mResetView | resets the current view, resetting the rotations, the translations and the scale factor. | |
Animation | A | mAnimation | if checked, enables the animation mode. You can use the mouse and/or the keyboard to change the animation. | |
Light | L | mLight | if checked, enables the OpenGL light effects (shades, reflections, etc). | |
Information | - | mMoleculeInfo | shows the informations about the molecule. |
4.3 Calculate menu
Item | Subitem | Accelerator | CmdName | Description |
Charge & Pot. | - | mCalcCharge | assigns the atomic charges and/or potentials. | |
MoPac | - | mCalcMoPac | opens the dialog window for MoPac calculations. | |
Surface | Calculate | - | mSrfCalc | calculate a surface. |
Save | - | mSrfSave | saves the calculated surface. | |
Color | - | mSrfColor | opens the dialog window to change the color of the surface. | |
Remove | - | mSrfRemove | removes the surface (there is the same item in Edit -> Remove -> Surface) | |
Cluster | - | mCalcCluster | adds a solvent cluster. | |
Analysis | - | mAnalysis | opens the dialog box to analyze a molecular dynamic trajectory file. | |
BioDock | - | mBioDock | starts the graphic interface for BioDock (molecular docking package). |
4.4 Tools menu
Item | Subitem | Accelerator | CmdName | Description |
GraphED | - | mGraphEd | starts the graphic editor for data manipulation. | |
MiniED | - | mMiniEd | starts the mini text editor that is integrated in VEGA. | |
WinDD | - | mWinDD | executes WinDD to decompress the data files. | |
Task Manager | Ctrl+T | mTaskMan | opens the integrated task manager to manipulate the running tasks (e.g. MoPac, BioDock, ecc). | |
Edit Prefs | - | mPreferences | opens the MiniED with preferences file (Vega\Data\prefs). |
4.5 Help menu
Item | Subitem | Accelerator | CmdName | Description |
Contents | - | mHlpContents | opens this help. | |
MoPac manual | - | mHlpMoPac | opens the MoPac manual. | |
Keys | - | mHlpKeys | shows a window with the list of all key with the associated finctions. | |
VEGA on the Web | - | mHlpWeb | points your default Internet browser to VEGA main page. | |
About | - | mHlpAbout | shows the copyright message. |