os.system issues

[Christian Heimes]

Youri Lammers schrieb:
> 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?

For starters you should use the subprocess module instead of os.system.
Next you have either write "E:\\..." or r"E:\..." (note the trailing 'r').

Try this:

import subprocess
subprocess.check_call(['E:\\Programs\\muscle\\muscle.exe', '-in',
'filename', '-out', 'filename'])

Christian