On Sat, Sep 17, 2011 at 4:03 AM, Thomas Holder <
spel...@users.sourceforge.net> wrote:
> Hi Lina,
>
> >> I can also offer you my own dssp script which works with multiple
> objects, see
> >> attachment. It provides the PyMOL commands "dssp" and "stride". Check
> "help dssp".
> >
> > Thanks, I tried,
> >
> > PyMOL>dssp all, /home/lina/dssp, raw=text_type
> > Traceback (most recent call last):
> > File "/usr/local/lib/python2.6/dist-packages/pymol/parser.py", line
> 254, in parse
> > self.result=apply(layer.kw[0],layer.args,layer.kw_args)
> > File "dssp.py", line 70, in dssp
> > process = Popen([exe, '-na', tmpfilepdb], stdout=PIPE)
> > File "/usr/lib/python2.6/subprocess.py", line 623, in __init__
> > errread, errwrite)
> > File "/usr/lib/python2.6/subprocess.py", line 1141, in _execute_child
> > raise child_exception
> > OSError: [Errno 2] No such file or directory
>
> does /home/lina/dssp point to your dssp executable?
>
Yes.
Later I also tried to keep the dsspcmbi name, still not work.
>
> Cheers,
> Thomas
>
> PS: I just realized that there is a new dssp-2 and it does not
> understand the -na option, thus will fail with my script without
> modifying it.
>
Thanks for your script.
>
> --
> Thomas Holder
> MPI for Developmental Biology
> Spemannstr. 35
> D-72076 Tübingen
>
--
Best Regards,
lina
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