Difference between revisions of "Mouse Manual"
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<tr bgcolor="yellow" align="center"> | <tr bgcolor="yellow" align="center"> | ||
| − | <td></td> | + | <td></td> |
| − | <td>'''main button'''</td> | + | <td>'''main button'''</td> |
| − | <td>'''middle button'''</td> | + | <td>'''middle button'''</td> |
| − | <td>'''secondary button'''</td> | + | <td>'''secondary button'''</td> |
</tr> | </tr> | ||
<tr bgcolor="yellow" align="center"> | <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> | ||
<tr> | <tr> | ||
| − | <td colspan="4"></td> | + | <td colspan="4"></td> |
</tr> | </tr> | ||
<tr> | <tr> | ||
| − | <td>'''Open Jmol menu'''</td> | + | <td>'''Open Jmol menu'''</td> |
| − | <td>Ctrl | + | <td>Ctrl + click<br />or click on 'Jmol' logo</td> |
| − | <td></td> | + | <td></td> |
| − | <td>click</td> | + | <td>click</td> |
| − | </tr><tr> | + | </tr> |
| − | <td colspan="4"></td> | + | <tr> |
| − | </tr><tr> | + | <td colspan="4"></td> |
| − | <td>'''Rotate around X,Y'''</td> | + | </tr> |
| − | <td>drag</td> | + | <tr> |
| − | <td></td> | + | <td>'''Rotate around X,Y'''</td> |
| − | <td></td> | + | <td>drag</td> |
| − | </tr><tr> | + | <td></td> |
| − | <td colspan="4"></td> | + | <td></td> |
| − | </tr><tr> | + | </tr> |
| − | <td>'''Move along X,Y (= translate)'''</td> | + | <tr> |
| − | <td>Shift | + | <td colspan="4"></td> |
| − | <td>double-click and drag</td> | + | </tr> |
| − | <td>Ctrl | + | <tr> |
| − | </tr><tr> | + | <td>'''Move along X,Y (= translate)'''</td> |
| − | <td></td> | + | <td>Shift + double-click and drag</td> |
| − | <td colspan="3" align="center">''works both when clicking on the molecule or away from it''</td> | + | <td>double-click and drag</td> |
| − | </tr><tr> | + | <td>Ctrl + drag</td> |
| − | <td colspan="4"></td> | + | </tr> |
| − | </tr><tr> | + | <tr> |
| − | <td>'''Reset and centre'''</td> | + | <td></td> |
| − | <td>Shift | + | <td colspan="3" align="center">''works both when clicking on the molecule or away from it''</td> |
| − | <td>double-click*</td> | + | </tr> |
| − | <td></td> | + | <tr> |
| − | </tr><tr> | + | <td colspan="4"></td> |
| − | <td></td> | + | </tr> |
| − | <td colspan="3" align="center">''*only works if double-click is done away from the molecule''</td> | + | <tr> |
| − | </tr><tr> | + | <td>'''Reset and centre'''</td> |
| − | <td colspan="4"> | + | <td>Shift + double-click*</td> |
| − | </tr><tr> | + | <td>double-click*</td> |
| − | <td>'''Rotate around Z'''</td> | + | <td></td> |
| − | <td>Shift | + | </tr> |
| − | <td>drag horizontally</td> | + | <tr> |
| − | <td>Shift | + | <td></td> |
| − | </tr><tr> | + | <td colspan="3" align="center">''*only works if double-click is done away from the molecule''</td> |
| − | <td colspan="4"></td> | + | </tr> |
| − | </tr><tr> | + | <tr> |
| − | <td>'''Zoom in / out'''</td> | + | <td colspan="4"> |
| − | <td>Shift | + | </tr> |
| − | <td>drag vertically</td> | + | <tr> |
| − | <td></td> | + | <td>'''Rotate around Z'''</td> |
| − | </tr><tr> | + | <td>Shift + drag horizontally</td> |
| − | <td></td> | + | <td>drag horizontally</td> |
| − | <td colspan="3" align="center">or use mouse wheel</td> | + | <td>Shift + drag horizontally<br />(possibly fails in Mac's)</td> |
| − | </tr><tr> | + | </tr> |
| − | <td colspan="4"></td> | + | <tr> |
| − | </tr><tr> | + | <td colspan="4"></td> |
| − | <td></td> | + | </tr> |
| − | <td colspan="3" align="center">''Implemented only on Jmol 10.00.22 prerelease and later:<br />Only work after a <tt>slab on</tt> command has been issued''</td> | + | <tr> |
| − | </tr><tr> | + | <td>'''Zoom in / out'''</td> |
| − | <td>'''Slab''' (slab from front)</td> | + | <td>Shift + drag vertically</td> |
| − | <td>Ctrl Shift | + | <td>drag vertically</td> |
| − | <td></td> | + | <td></td> |
| − | <td></td> | + | </tr> |
| − | </tr><tr> | + | <tr> |
| − | <td>'''Depth''' (slab from back)</td> | + | <td></td> |
| − | <td>Ctrl Shift | + | <td colspan="3" align="center">or use mouse wheel</td> |
| − | <td></td> | + | </tr> |
| − | <td></td> | + | <tr> |
| − | </tr><tr> | + | <td colspan="4"></td> |
| − | <td>'''Shift the slab''' (change slab and depth maintaining constant thickness)</td> | + | </tr> |
| − | <td>Alt Ctrl Shift | + | <tr> |
| − | <td></td> | + | <td></td> |
| − | <td></td> | + | <td colspan="3" align="center">''Implemented only on Jmol 10.00.22 prerelease and later:<br />Only work after a <tt>slab on</tt> command has been issued''</td> |
| − | </tr><tr> | + | </tr> |
| − | <td></td> | + | <tr> |
| − | <td colspan="3" align="center">''*if this fails on a Mac, try pressing the mouse button first, then the Ctrl Shift keys, then drag''</td> | + | <td>'''Slab''' (slab from front)</td> |
| − | </tr><tr> | + | <td>Ctrl+Shift + drag (vertically) *</td> |
| − | <td></td> | + | <td></td> |
| − | <td colspan="3" align="center">''Slab can be tested in [http:// | + | <td></td> |
| − | </tr></table> | + | </tr> |
| + | <tr> | ||
| + | <td>'''Depth''' (slab from back)</td> | ||
| + | <td>Ctrl+Shift + double-click and drag (vertically) *</td> | ||
| + | <td></td> | ||
| + | <td></td> | ||
| + | </tr> | ||
| + | <tr> | ||
| + | <td>'''Shift the slab''' (change slab and depth maintaining constant thickness)</td> | ||
| + | <td>Alt+Ctrl+Shift + drag (vertically) *</td> | ||
| + | <td></td> | ||
| + | <td></td> | ||
| + | </tr> | ||
| + | <tr> | ||
| + | <td></td> | ||
| + | <td colspan="3" align="center">''*if this fails on a Mac, try pressing the mouse button first, then the Ctrl Shift keys, then drag''</td> | ||
| + | </tr> | ||
| + | <tr> | ||
| + | <td></td> | ||
| + | <td colspan="3" align="center">''Slab can be tested in [http://biomodel.uah.es/Jmol/slab/ this page]''</td> | ||
| + | </tr> | ||
| + | </table> | ||
<br /><br /> | <br /><br /> | ||
Revision as of 22:58, 7 June 2007
- A list of Jmol / JSmol Tutorials written by users.
- Using the mouse (English · Español · Français · Japanese).
- Scripting quickstart: rendering options · selecting atoms.
- How to create surfaces and isosurfaces, including cavities, pockets and tunnels.
- Displaying shapes, polyhedra, orbitals, dipoles, distances, forces and vibrations.
- Creating movies.
- Customizing Jmol: macros · menus.
- Web pages without writing code by using the Jmol "Export to Web" function.
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Manual for manipulating the molecules using the mouse in Jmol (also called 'mouse gestures')
Notes:
- In the usual configuration, "main button" is the left button, and "secondary button" is the right button.
- 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):
- double-click on the starting atom
- to fix a distance measurement, double-click on second atom
- Angle (3 atoms):
- double-click on the starting atom
- click on the second atom (central atom in angle)
- to fix an angle measurement, double-click on third atom
- Torsion angle or dihedral (4 atoms)
- double-click on the starting atom
- click on the second atom
- click on the third atom
- 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
Contributors
Hansonr, Rhuehne, AngelHerraez, Ted, Pimpim, Cudo29, NicolasVervelle, Tania, Domtheo
