Hi Daniel,
Apparently, no b-factors were assigned, or the CA positions in all states are
identical.
Here is a similar script, maybe that works better for you (uses “rmsf2b” from
PSICO):
run
https://raw.githubusercontent.com/speleo3/pymol-psico/master/psico/editing.py
fetch 1nmr, async=0
rmsf2b 1nmr
spheroid 1nmr
as cartoon
cartoon putty
spectrum b, blue_white_red, 1nmr & guide
Hope that helps.
Cheers,
Thomas
> On Apr 27, 2017, at 4:11 PM, Daniel Munoz Escudero
> wrote:
>
> Hello,
>
> I found in this repository http://muralab.org/~cmura/PyMOL/ an script
> (average3d.py) to perform the sausage representation in PyMOL. Although it
> works perfectly good with the pdbs given in the examples, I couldn't get the
> same results for my molecule. After performing all the RMSD calculations (I
> have 51 states in my molecule), the message: " Extrude-Warning: invalid putty
> settings (division by zero)", appears right after the command:
> cmd.spectrum('b','blue_white_red','yesfit_ALL and name CA')
>
> I really don't know what the problem is. Has anyone had a similar problem and
> could help me out?
>
> Thank you very much,
>
> Daniel.
--
Thomas Holder
PyMOL Principal Developer
Schrödinger, Inc.
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