Hugo,
I took that out because I got very little response to the "ailgnto"
command. (Do others use it?) I like it, so I might put it back in.
For now, you can restore that functionality by copy/pasting this into
"alignto.py":
def alignto(sel1):
"""Just a quick & dirty multiple structure alignment"""
for x in cmd.get_names(selection="*"):
print "Aligning %s to %s" % (x, sel1)
cmd.cealign( sel1, x )
# Let PyMOL know about the alignto command
cmd.extend("alignto", alignto)
Start up PyMOL and then type
@/path/to/alignto.py
where "path/to" is the path to where you saved the alignto.py file.
'alignto' should now be defined and working.
-- Jason
2010/2/25 Hugo Gutiérrez de Teran <hugo.te...@usc.es>:
> Hi Jason,
>
> I have compiled the last PyMOL code, and tried to used CEalign. What I
> wanted is to align all proteins using the first entry as reference, as
> it is possible with the CEalign command "alignto" (following
> instructions in
> http://pymolwiki.org/index.php/Cealign#Multiple_Structure_Alignments).
>
> But alignto command is not found ....
>
> I don't know if this is a bug.
> Any help to align all molecules onto the first entry is also appreciated.
>
> Cheers,
> Hugo
> Jason Vertrees wrote:
>> PyMOLers,
>>
>> As promised:
>>
>> * FreeMOL is back up.
>>
>> * CEalign has been built into the PyMOL source code. You can check
>> out the SourceForge code and test it out.
>>
>> Cheers,
>>
>> -- Jason
>>
>>
>
>
> --
> Hugo G. de Teran, PhD.
> "Parga Pondal" Research fellow
> Fundación Pública Galega de Medicina Xenómica - SERGAS
> Santiago de Compostela (SPAIN)
>
> Phone +34 981563100 ext 13873
> e-mail:hugo.te...@usc.es
> http://webspersoais.usc.es/persoais/hugo.teran/
>
>
--
Jason Vertrees, PhD
PyMOL Product Manager
Schrodinger, LLC
(e) jason.vertr...@schrodinger.com
(o) +1 (603) 374-7120
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