Generally, in viewing mode, left click allows you to rotate the molecule, middle click allows a translation, right click a zoom, and the wheel slabs. The different functions (including key/mouse combinations) are shown in the bottom right of the Viewer window (where it says " Mouse Mode"). If you do not have a three-button mouse with a wheel you can select 2 or 1 button viewing mode from the Mouse drop-down menu in the Tcl/Tk window.
Most of the time the default (3-button Viewing) will be fine for moving around your molecule. There are a number of different mouse modes that can be used in PyMOL. In addition you can download all sorts of extra scripts and plug ins written by other people. Pretty much everything you will ever want to do in PyMOL can be done using the mouse, however to get that extra bit of flexibility the GUI includes command prompts in the Tcl/Tk window (best one to use as you can see the history and error messages) and at the bottom of the viewer window. This will give you two windows called the "PyMOL Tcl/Tk GUI" and the "PyMOL Viewer":Īlthough PyMOL can be run entirely from scripts, the presence of this GUI places PyMOL head and shoulders above previous picture-making programs such as Molscript or Bobscript. Once installed you can start PyMOL by double clicking on the icon (in MS Windows) or by typing pymol at the command prompt in Linux. Additional help can be found using the manual, wiki and FAQ on the PyMOL website.
PYMOL TUTORIAL ONLINE INSTALL
You can download an evaluation copy from the DeLano Scientific website which is very easy to install on a windows based machine. PyMOL is a great program for looking at molecular structures and making publication quality pictures or movies.
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