[PyMOL] Extracting Scene Info

Dear PyMol users, is there a command which extracts/outputs all scene info? JPK -- *** Jacob Pearson Keller Northwestern University Medical Scientist Training Program email: j-kell...@northwestern.edu *** --

Re: [PyMOL] Transformation Matrices

matrix with "transform_selection". >> >> There is also "matrix_copy" command, but I haven't tried it with >> multi-state stuff. >> >> http://pymolwiki.org/index.php/Align >> http://pymolwiki.org/index.php/Get_object_matrix >> http://pymolwiki.o

[PyMOL] Transformation Matrices

Dear List, I want to superpose a series of 30 states on another (single-state) model in the following way: --Superpose the best (closest-fitting) state first. (I know which one this is) --Output that transformation matrix --Transform other states by same matrix to preserve states' inter-relation.

Re: [PyMOL] Association of .pdb with PyMol

>command. In the Default change its location to the actual location of the executable, hit okay and then try and reassociate the file type as you normally would." This worked for me. Jacob On Wed, Dec 28, 2011 at 12:28 PM, Jacob Keller wrote: > Dear List, > > I have v.1.41 ru

[PyMOL] Association of .pdb with PyMol

Dear List, I have v.1.41 running on windows 7 64 bit, and cannot associate .pdb files with pymol. The OS simply seems to ignore the association "choose default program," with no error message or anything, and also when I try to do same through the control panel. Any thoughts? Jacob -- *

Re: [PyMOL] about super_all.py Plugin installation.

You can try the "alignto" command as an alternative, if you want. JPK On Mon, Dec 26, 2011 at 12:45 PM, PAVAN PAYGHAN wrote: > Dear PyMol Users, > > I am using PyMol +v0.97 version on Windows XP .I have downloded > super_all.py  and tried to install the plugin by using install Plugin option > me

[PyMOL] Pymol Crashes Despite Plenty of Extra Memory

Dear Pymol Users, I have 6 GB of RAM, but I am still getting crashes when I try to render my 30-state figure, even when I don't raise the hash_max (lowering it makes it take really long). When I look at the task manager to see how much RAM is being used, it still is very far from being maxed out,

Re: [PyMOL] Color states as rainbow

had a bug. > > Btw. I like Tsjerk's suggestion best, using b-factors. > > Cheers, >  Thomas > > Jacob Keller wrote, On 12/19/11 03:38: > >> Dear Pymol list, >> >> I have been trying to color the states in a morph by spectrum to try >> to show the motion

[PyMOL] Color states as rainbow

MD figures all the time, no? Thanks very much, Jacob Keller -- *** Jacob Pearson Keller Northwestern University Medical Scientist Training Program email: j-kell...@n