os.system issues

[Youri Lammers]

Ok,
 
I want to run a program called 'muscle' with my python script,
muscle uses the following command:
'muscle.exe -in filename -out filename'
so far I got:
 
import os
args = ['-in filename', '-out filename']
os.system('E:\Programs\muscle\muscle.exe args')
 
However, when I run this nothing happends, no error message, nothing.
 
So what am I doing wrong here?
 
Youri
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