6.31. Winmostar Viewer

Winmostar Viewer is software attached to Winmostar specialized for drawing, displaying molecular orbital etc.
It is also possible to display only specific ingredients in a multicomponent system like MD.

6.31.1. How to use the mouse

Left button + drag

Rotate the viewpoint.
As you drag and release the mouse button it will continue to rotate.

Right button + up and down drag

Zoom In/Out.

Left button + right button + drag

It moves vertically and horizontally.

6.31.2. Menu operation

6.31.2.1. File menu

Open

Read gld and MOLDA format files.

Save GLD

Save the currently open GLD format file with a name.

Save MOLDA

Save the structure displayed in the window in MOLDA format.

Save JPEG

Save the contents displayed in the window as a JPEG file.

Save JPEG (Stereo)

Save the left and right screens for stereoscopic viewing as a JPEG file.

StereoPhoto Maker

Start StereoPhotomaker.

Exit

Quit Winmsotar Viewer.

6.31.2.2. View menu

Representations

Perform detailed drawing adjustment Representations window is displayed.

Perspective

I use perspective.

Background Color

Specify the color of the background.

Winmostar Viewer

Make the background color dark blue.

Winmostar

Make the background color the default background color of Winmostar.

Black

Make the background color black.

White

Set the background color to white.

Model

Select the model to display.

Ball-and-Stick Model

Display the spherical bar model.

Space-Filling Model

Display space filling model.

Stick Model

Displays the bar model.

Wire Model

Display wire model.

Show SPace-Filling Model Overlapping

Display superimposed spatial priority models translucently.

Show Animation Control Panel

Animation operation panel is displayed.

Copy Image

Copy the image displayed in the window to the clipboard.

6.31.2.3. Help menu

Help

It shows how to use the mouse.

About Winmostar Viewer

Display version.

Debug

Displays debugging information such as memory usage.

6.31.3. Animation operation panel

When you display animation in Winmostar 3D, the UI for animation operation appears in the upper left corner of Winmostar 3D window.

slider

Move the frame.

Once

When playback reaches the last frame, playback stops.

Loop

When playback reaches the last frame, return to the first frame and repeat playback.

Round

Repeat playback in round trip.

JPEG

When playing with checked, the displayed contents are saved in JPEG format

GIF

When you play with the checked, the displayed contents are saved in GIF format

Close

Close this panel.

6.31.4. Representations window

Orbit/Rotation

Specify the rotation method when rotating the viewpoint with left drag.

Orbit

Rotate freely.

X, Y or Z

Rotate around the horizontal direction within the window, the vertical direction within the screen, or the direction perpendicular to the screen.

Periodic Boundary Condition

Specify how to display molecules that are outside the cell.

None

Display the original coordinates as they are.

Atom

It displays the structure so that it fits within the cell in atomic units.

Mol

Displays the structure so that the structure fits within the cell in molecule units.

Molecule

From the 1 in the middle of this window 9 is assigned to each molecule.

Composition

Assign 9 from 1 in the middle of this window to each molecular species (with the same molecular weight).

1 - 9

The checked items are displayed. In the pull-down menu BS, SF, ST, WI are Ball-stick model (default), Space filling , Stick (rod) model, wire model.

Rainbow

It displays in different colors for each molecule.

Gold

The molecule is displayed in gold color.

Stereo

It displays stereoscopically.

Enantiomer

Display the original structure and its mirror image.

Para

Display in parallel method.

Cross

It displays by the intersection method.

Anag

It displays with anaglyph. (Red and blue glasses are used)

Shift

Specify the distance between molecules.

red

Specify the size of the molecule to rotate.

H

If checked, hydrogen atoms are displayed.

Dummy

When checked, dummy atoms are displayed.

Backbone

If checked, only the backbone will be displayed. (For proteins)

Atom

Sets the display magnification of atoms.

Bond

Sets the display magnification of the join.

Z-Clip

Specify the clipping position in the Z direction.

Surface Style

Specify how to display isosurface such as molecular orbital.

Mesh

We display the isosurface in mesh (lattice) model.

Solid

Displays the isosurface in a solid model.

SmoothSolid

Display the isosurface in a smooth solid model.

Trans

Specify the transparency of the isosurface. (0: opaque, 1: transparent)

Contour Map Position

When mesh (scalar field) information such as molecular orbital is read, draw contour map (contour line) against the checked surface. The position of the contour map can be adjusted with the slider.