[BioPython] dssp

[Thomas Hamelryck]

On Friday 18 June 2004 14:06, Hua Wong wrote:
> Another newbie question...

Well awright!

> >>> model=structure[0]
> >>> dssp=DSSP(model,'0b.pdb')
>
> sh: line 1: dssp: command not found
>
> I think it is because my dssp isn't installed in a
> default-just-for-root-almighty location.
>
> Am I right? If yes, what can I do to tell bio.PDB dssp the location of
> dssp... Else, what are the other possible problems?

Of course, dssp needs to be installed. If it's in your path,
it will work as is, but you can also specify the explicit location of the dssp 
binary. For example:

dssp=DSSP(model, '0b.pdb', "/home/thomas/dssp/dssp.bin")

-Thomas