3. Main Window

3.1. Role of each part

The window (called Main Window ) that appears after starting Winmostar has the configuration shown below.

In the title of Main Window, the name of the file currently being edited, the license and version of Winmostar in use are displayed.

main_window_EN

Toolbar

Here you can also select commonly used functions in the main menu. You can check the role of each button by overlaying the pointer. In addition, only the following functions perform special operations.

  • Depending on the solver selected in the Solver pull-down menu solver (default is MOPAC) in the first row of the upper toolbar, the role of buttons such as Configure, Run will change.

  • Depending on the element selected in the Select element used in editing operations pull-down menu, the behavior of Add Atom and Change Element buttons beside it will change.

Project Display Area

Projects created in the past are displayed in Recently used projects. Double-click on an item to open that project. The project display area is only visible in project mode.

Working Folder” displays the working folder for the currently opened project. Clicking on Options allows you to select operations for the selected working folder. Double-clicking on an item opens the input file for that working folder. The eyeball icon will appear in the working folder that contains the file displayed in the molecule display area. If that folder is not selected with working folder, the eyeball icon will appear red.

In action, an operation on the working folder selected by working folder will appear.

Viewport

The molecular structure currently being edited is displayed. By default, the structure where carbon atom (green) and hydrogen atom (yellow) are bonded is displayed.If the View ‣ Items ‣ Information menu is checked, detailed information will be displayed at the top and bottom.Red circle indicates atom selection marker.In group selection state, atoms are surrounded by blue circles.You can toggle the number displayed on the side of each atom and the type of charge value from the View ‣ Labels/Charges menu.The color scheme can be changed from the Tools ‣ Preferences ‣ View .

In project mode, the name of the file being displayed is shown at the top of the molecule display area. If the file being displayed is not contained in the working folder selected in the working folder, it is displayed in red.

Animation operation area

The animation control buttons are displayed. Click to show/hide.

Keyword Editor

The settings in the Keyword Settings window for each solver will be displayed. Alias characters such as %WM_XYZ%, %WM_ZMAT%, etc. appear in the molecular structure-dependent parts of the keywords. Click to show/hide.

Coordinate Viewer

The coordinates of each atom of the molecular structure displayed in Viewport are displayed.You can switch the display format and output format on the upper tab.By default Z-Matrix is selected.In a state where no group is selected, the line selected in Coordinate Viewer matches the atom with the marker (red circle).Group selection (blue circle) can be done by selecting multiple lines by Ctrl+left click or Shift+left click. Click to show/hide.

3.2. Mouse controls

In Viewport, you can operate with the mouse as shown in the table below. Details on how to select molecules/atoms can be found in Select menu.

Modifier
Key
Left click
Left drag
Right click
Right drag/
Wheel

None

Move marker

Roll camera

Show context menu

Zoom in/out

Shift

Select molecule
or unselect

Pan camera

Delete atom

Ctrl

Select each atoms
or unselect

Select atoms in rectangle area

Ctrl+Shift

Replace with Fragment

Note that you can also zoom in or out by left-dragging the right end of Viewrport.

3.3. Shortcut keys

In Main Window you can use the shortcut keys in the table below.

Basic operations

New

Ctrl+N

Open

Ctrl+O

Save

Ctrl+S

Save As

Shift+Ctrl+S

Undo

Ctrl+Z

Redo

Ctrl+Y

Cut Group

Ctrl+X

Copy Group

Ctrl+C

Paste Group

Ctrl+V

Help

F1

Modelling

Replace with Fragment

F6

Add Atom by Specifying Position

F4

Delete atom

Shift+F4

Add/Change Bond

F7

Delete Bond

F8

Move Atom (Translate)

F5

Change Element

Shift+F5

Add Hydrogens to All Atoms

Ctrl+H

Delete Group

Ctrl+D

Build Ring

F9

Modifying structure

Quick Optimization

Ctrl+G

Move Group (Direct)

Ctrl+M

Rotate Around Axis (2 Marked Atoms)

Ctrl+R

Rotate Around Axis (3 Marked Atoms)

Ctrl+A

Change Optimization Flags of Group

Ctrl+I

Adjust All Bond Length

Ctrl+J

Orbit Group Around Marked Atom

Ctrl+F

Quick Optimization for Group

Ctrl+L

Controlling Display

Zoom In

F3

Zoom Out

F2

Fit to Window

Ctrl+4

Align View

Ctrl+1, 2, 3

Show Keyword Editor & Coordinate Viewer

F10

Export Image

Ctrl+Alt+I

Copy Image

Ctrl+Alt+C