Hi Warren,
PyMOL's PDB handling is an attempt to navigate a minefield of
incompatible standards which exist in the conventions of various
software packages.
Ugh. I know more about incompatable PDB files than I ever wanted to. I
once wrote something much like Andrew Dalke's UPDB (see
Really thank you Dr. DeLano,
I'll test it right now.
I used to work with 1,5 Gb memory, but now I'm praying to get at least
more 256 Mb ram.
Money is no problem, the problem is the lack of it. :-)
BTW, what's default of cartoon_sampling?
How will it affect my pictures?
Cheers,
On Thu, 2 Oct
Alan,
VMD is more memory efficient that PyMOL. Probably the main
reason for this is that PyMOL pre-calculates and stores all of the
geometries it is going to show down to the last vertex.
You can reduce the amount of memory PyMOL needs for cartoons by
setting:
set cartoon_samp
Hi List!
I finally got a Pymol script which does what I want, but I still have
problems. I follows my actual script:
-
del all
mclear
set cache_frames=0
set cartoon_fancy_helices, 1
load c1/forcedin.pdb,c1
frame 1
hide all
run Pymol/stride_ss.py
stride2pymol
Dear All,
I am relatively new to using Pymol and am finding that where I have dual
conformations in my
pdb file I get chain breaks in the display. Since I am looking at twenty
superposed structures
removing the dual conformers is going to be a little time consuming. Is there
an easy way around
