Thanks for the quick reply. That works like a charm.
On May 8, 2015, at 12:37 PM, Thomas Holder
wrote:
> Hi Bernhard,
>
> "delete" strictly operates on object names, not on atom selections. This
> difference is unfortunately a common point of confusion.
>
> Here's a delete command which ope
Hi all,
Is anyone interested in writing a DSSR plugin for PyMOL? DSSR is an integrated
software tool for Dissecting the Spatial Structure of RNA
(http://x3dna.bio.columbia.edu/docs/dssr-manual.pdf). Among other things, DSSR
defines the secondary structure of RNA from 3D atomic coordinates in a
Hi Bernhard,
"delete" strictly operates on object names, not on atom selections. This
difference is unfortunately a common point of confusion.
Here's a delete command which operates on a selection and therefore supports
the "not" operator:
python
@cmd.extend
def delete_by_sele(selection):
Hi all,
after an extensive pymol session, I ended up with a lot of intermediate objects
that I now want to delete so I will only keep my final object. Is there an easy
way to remove all but one object? I tried the delete command, but something like
delete (not obj_final)
did not work as expecte
Hi Al,
based on my experience running align or super with "cycles=0" has the tendency
to produce inferior alignment results. So depending on how similar the
conformation of your structures are you may end up with skewed statistics. What
I've done in the past and for a paper I'm working on now i
Thanks Thomas,
I was already printing k[i][3] (RMSD before refinement) instead of
k[i][0] (RMSD after refinement) but your "cycles=0" looks cleaner.
Cheers,
Albert
On 05/06/2015 05:14 PM, Thomas Holder wrote:
> Hi Albert,
>
> Please pay attention to the difference between all-atom RMSD and RMSD
