Difference between revisions of "Mouse Manual"

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<td>'''middle button'''</td>
 
<td>'''middle button'''</td>
 
<td>'''secondary button'''</td>
 
<td>'''secondary button'''</td>
</tr><tr bgcolor="yellow" align="center">
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</tr>
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<tr bgcolor="yellow" align="center">
 
<td></td>
 
<td></td>
 
<td>(left)</td>
 
<td>(left)</td>
 
<td>(middle)</td>
 
<td>(middle)</td>
 
<td>(right)</td>
 
<td>(right)</td>
</tr><tr>
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</tr>
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<tr>
 
<td colspan="4"></td>
 
<td colspan="4"></td>
</tr></tr>
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</tr>
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<tr>
 
<td>'''Open Jmol menu'''</td>
 
<td>'''Open Jmol menu'''</td>
 
<td>Ctrl  click<br />or click on 'Jmol' logo</td>
 
<td>Ctrl  click<br />or click on 'Jmol' logo</td>

Revision as of 22:52, 7 June 2007

Jmol / JSmol Tutorials

Geographylogo.png

Reference: English – Other: Español · Français · 日本語 ·


Manual for manipulating the molecules using the mouse in Jmol (also called 'mouse gestures')

Notes:

  1. In the usual configuration, "main button" is the left button, and "secondary button" is the right button.
  2. Reportedly, on single-button mice Alt drag may be equivalent to drag with middle button.


main button middle button secondary button
(left) (middle) (right)
Open Jmol menu Ctrl click
or click on 'Jmol' logo
click
Rotate around X,Y drag
Move along X,Y (= translate) Shift double-click and drag double-click and drag Ctrl drag
works both when clicking on the molecule or away from it
Reset and centre Shift double-click* double-click*
*only works if double-click is done away from the molecule
Rotate around Z Shift drag horizontally drag horizontally Shift drag horizontally
(possibly fails in Mac's)
Zoom in / out Shift drag vertically drag vertically
or use mouse wheel
Implemented only on Jmol 10.00.22 prerelease and later:
Only work after a slab on command has been issued
Slab (slab from front) Ctrl Shift drag (vertically) *
Depth (slab from back) Ctrl Shift double-click and drag (vertically) *
Shift the slab (change slab and depth maintaining constant thickness) Alt Ctrl Shift drag (vertically) *
*if this fails on a Mac, try pressing the mouse button first, then the Ctrl Shift keys, then drag
Slab can be tested in this page



How to select

  • Use the appropriate picking command, e.g.

set picking group

to toggle selection for an entire amino acid by clicking on one of its atoms,
  • Click on an atom will toggle selection status.
  • Most useful while

set display selected

is set to monitor the selection status.


How to make measurements

  • Distance (2 atoms):
    1. double-click on the starting atom
    2. to fix a distance measurement, double-click on second atom
  • Angle (3 atoms):
    1. double-click on the starting atom
    2. click on the second atom (central atom in angle)
    3. to fix an angle measurement, double-click on third atom
  • Torsion angle or dihedral (4 atoms)
    1. double-click on the starting atom
    2. click on the second atom
    3. click on the third atom
    4. to fix a dihedral angle measurement, double-click on fourth atom
  • In all cases:
    • move pointer over destination atom in order to see measurement results without leaving a permanent measurement
    • move outside the window in order to cancel the measurement
    • make the same measurement again in order to delete the measurement