[PyMOL] Transparency in residues

2003-04-22 Thread Mads Gabrielsen
Dear all, I am new to this list, and new to PyMOL, so I appologise if this is an old question. Is it possible to alter the transparency of a stick/cartoon model? I have searched the manual, but have only been able to find how to change transparency of a surface and that is not what I want to show

Re: [PyMOL] Stereo pictures, light vector and shadows

2003-04-22 Thread Anthony Duff
I make stereo pictures by making two pictures, with the command "turn y, 6" in between. Now that I am looking into a crevice, I have discovered a problem with this simple method. When the view is rotated, the light vector moves with the view. This results in the two pictures having differ

RE: [PyMOL] Will a faster graphics card speed up ray tracing?

2003-04-22 Thread Nat Echols
> Not at all. The only way to increase ray tracing speed is to > upgrade your CPU. I think a 100-150 Ghz Pentium 8 is just about > optimal. On this note, our collaborators in CS have a test Itanium2 box that I have an account on - I've been planning to try out a bunch of comp. bio. softwar

RE: [PyMOL] Will a faster graphics card speed up ray tracing?

2003-04-22 Thread Warren L. DeLano
Scott, Not at all. The only way to increase ray tracing speed is to upgrade your CPU. I think a 100-150 Ghz Pentium 8 is just about optimal. You can also tweek some of the parameters: Increasing the hash_max setting to 160 or 180 can improve raytracing of complex scenes, if you have lo

[PyMOL] Will a faster graphics card speed up ray tracing?

2003-04-22 Thread Scott Classen
Warren, Does PyMOL ray tracing speed depend on the graphics card? I am curious what factors (hardware or software) effect rendering speed. Thanks, Scott == Scott Classen, Ph.D. clas...@uclink4.berkeley.edu University of California, Berkeley D

[PyMOL] bug in movie.tdroll?

2003-04-22 Thread Efstratios Stratikos
Hi, I am running ver 0.86 and I noticed the movie.tdroll function not working. When I appended the command "first=int(first)" just under the definition of the "movie.tdroll" function in the "movie.py" file the function seems to work. I hope this helps. -- Efstratios Stratikos University of Ma