Hi Anasuya,

instead of "python" you must type "run":

PyMOL>run findSurfaceResidues.py
PyMOL>findSurfaceResidues doShow=True, cutoff=2.5

That's all.

Quick explanation what happend in your case: With the "python" command 
you start a multi-line python block in the PyMOL command line 
interpreter, which will only be executed once you type "python end". 
Therefore nothing happend.

Cheers,
   Thomas

Anasuya Dighe wrote, On 05/05/12 13:08:
> Hi Pymol Users,
> 
> I was trying to use the findSurfaceResidues.py script listed on PyMOLwiki
> (http://www.pymolwiki.org/index.php/FindSurfaceResidues), to find out which
> residues which are present on the surface of the protein.
> 
> These are the steps I have followed:
> 1) Made a file called findSurfaceResidues.py [with the code as mentioned on
> PyMOlwiki], in my /home/anasuya/Desktop folder.
> 2) Opened PyMOL from my Desktop folder.
> 3) In the command line window of PyMOL, I typed in:  python 
> findSurfaceResidues.py
> 4) Next, as mentioned on the PyMOLwiki page, I typed: findSurface residues
> doShow=True
> 5) And finally I typed : findSurfaceResidues doShow=True, cutoff=2.0
> 
> However, I am not able to visualize anything.
> On the command line window in PyMOL, I see the following:
> 
> PyMOL>python findSurfaceResidues.py
> PyMOL>findSurface residues doShow=True
>     1:findSurface residues doShow=True
> PyMOL>findSurfaceResidues doShow=True, cutoff=2.5
>     2:findSurfaceResidues doShow=True, cutoff=2.5
> 
> Please tell me what seems to be wrong with my procedure.
> 
> Thanks,
>  - Anasuya

-- 
Thomas Holder
MPI for Developmental Biology
Spemannstr. 35
D-72076 Tübingen

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