Re: [PyMOL] image metadata plugin

2007-02-13 Thread Martin Höfling
Am Dienstag, 13. Februar 2007 schrieb DeLano Scientific:

 We have much work to do to make annotations more general and more
 accessible...

Personally, i just store the session with the scene to reget an impression 
what I did, but you're right this does not explain what you actually see.

Cheers
Martin

-- 
Liberty is always dangerous, but it is the safest thing we have. (Harry 
Emerson Fosdick)



Re: [PyMOL] how do i unset a cmd.set_key() binding ?

2007-02-13 Thread Philippe . Garteiser-1
Hello !

I finally found out what my problem was. Thanks to Warren DeLano I tried to 
overwrite a cmd.set_key with another one in a very simple setting, and it 
worked. That made me realize that what I wanted to do was to override a 
cmd.set_key()' with a scene selection rather than with another cmd.set_key() 
like I initially thought:

(...)
cmd.set_key('F1',showonlyone,['-1-100'])
(...) some script (...)
cmd.scene('F1','store','HPC-4 Fab structure: overview')

Conclusion: a set_key binding takes precedence over a scene storage. Thank you 
for your suggestions; I have now added Peter's cmd.set_key('F1',None) at some 
point to release the keys for scene storage, my presentation is finally 
smoothed !

Garteiser Philippe 
OMRF, Cardiovascular Biology dpt. 
Doctoral candidate, OU Bioengineering 
Advisors: Dr. Tim Mather, Dr M. Uli Nollert 
12600 N Macarthur 
Crown Pointe apt. #1423 
Oklahoma City, OK 73142 
home: (405) 603 7091 
work:   (405) 271 4924 

It does not pay to leave a live
dragon out of your calculations
 - Tolkien 


- Original Message -
From: Warren DeLano war...@delsci.com
Date: Monday, February 12, 2007 9:17 pm
Subject: RE: [PyMOL] how do i unset a cmd.set_key() binding ?
To: philippe.garteise...@ou.edu


  I have a problem with set_key() that appeared when I executed two
 scripts
  sequentially. In both scripts I set the F1 key to do something
 different
  (ok, not a very smart move...). I thought that the newest set_key()
 would
  take precedence over the latest and overtake its adressing, but
  unfortunately it does not.
 
 Strange -- it does for me... how are you using it exactly?  Is it in a
 module you import?
 
 Cheers,
 Warren
 
  -Original Message-
  From: pymol-users-boun...@lists.sourceforge.net [
  boun...@lists.sourceforge.net] On Behalf Of
 philippe.garteise...@ou.edu
  Sent: Friday, February 09, 2007 5:31 PM
  To: pymol-users@lists.sourceforge.net
  Subject: [PyMOL] how do i unset a cmd.set_key() binding ?
  
  Hi list !
  
  I have a problem with set_key() that appeared when I executed two
 scripts
  sequentially. In both scripts I set the F1 key to do something
 different
  (ok, not a very smart move...). I thought that the newest set_key()
 would
  take precedence over the latest and overtake its adressing, but
  unfortunately it does not. The binding is very persistent, because I
 need
  to close pymol and reopen it altogether between the two scripts so
 that
  the new binding can take place. The current workaround for me is to
 have 2
  pymol instances opened (btw wow on pymol's performance even on slow
  machines ! 30 proteins in one window and a density map in the other 
 on
  just 512M at 1.8GHz !), but I would still prefer to know how to do
 that.
  
  Thanks in advance !
  
  Garteiser Philippe
  OMRF, Cardiovascular Biology dpt.
  Doctoral candidate, OU Bioengineering
  Advisors: Dr. Tim Mather, Dr M. Uli Nollert
  12600 N Macarthur
  Crown Pointe apt. #1423
  Oklahoma City, OK 73142
  home: (405) 603 7091
  work:   (405) 271 4924
  
  It does not pay to leave a live
  dragon out of your calculations
   - Tolkien
  
 
 
 -
  Using Tomcat but need to do more? Need to support web services,
 security?
  Get stuff done quickly with pre-integrated technology to make your job
  easier.
  Download IBM WebSphere Application Server v.1.0.1 based on Apache
 Geronimo
 
 
  ___
  PyMOL-users mailing list
  PyMOL-users@lists.sourceforge.net
  
  
 



Re: [PyMOL] inverse carve command

2007-02-13 Thread DeLano Scientific
Jan,

Try using a negative number for the carve argument.

Cheers,
Warren


 -Original Message-
 From: pymol-users-boun...@lists.sourceforge.net 
 [mailto:pymol-users-boun...@lists.sourceforge.net] On Behalf 
 Of Jan Lipfert
 Sent: Saturday, February 10, 2007 12:40 AM
 To: pymol-users@lists.sourceforge.net
 Subject: [PyMOL] inverse carve command
 
 
 Dear pymol experts,
 
 I would like to render a density at a given contour such that 
 all density shows that is NOT within a certain distance of a residue.
 So in a sense I need the inverse of the carve command.
 
 
 I would really appreciate any ideas,
 
 Cheers,
 Jan
 
 
 
 
 --
 ---
 
 Jan Lipfert
 Department of Physics
 Stanford University
 Geballe Laboratory of Advanced Materials McCullough Bldg. 318
 476 Lomita Mall
 Stanford, CA, 94305
 Cell:+1-650-2831734
 Office:  +1-650-7230219
 Fax: +1-650-7232156
 
 
 
 
 
 --
 ---
 Using Tomcat but need to do more? Need to support web 
 services, security?
 Get stuff done quickly with pre-integrated technology to make 
 your job easier.
 Download IBM WebSphere Application Server v.1.0.1 based on 
 Apache Geronimo
 http://sel.as-us.falkag.net/sel?cmd=lnkkid=120709bid=263057;
dat=121642
 ___
 PyMOL-users mailing list
 PyMOL-users@lists.sourceforge.net
 https://lists.sourceforge.net/lists/listinfo/pymol-users