RE: [PyMOL] fedora core 3 and pymol

2004-12-06 Thread Warren DeLano
Wolfram, This could (at least in theory) be a bug in PyMOL, but I suspect it is a problem with either Mesa or the OpenGL drivers on your system. Seeing the backside of triangles look like the front is an indication that either PyMOL or the graphics driver is scrambling the order of vertices or in

[PyMOL] fedora core 3 and pymol

2004-12-06 Thread tempel
Colleagues, I noticed the following problem on fedora core 3 boxes (i386 and x86_64), using either pymol 0.96 or 0.97 (precompiled linux tar ball): The cartoon representation of PDB entry 1NXC (approx. 400 residues, mainly helical) appears normal for about half of the structure whereas the other ha

Re: [PyMOL] rendering pictures to publish

2004-12-06 Thread Jim Nettles
Another trick, after capturing the maximum # of relevant pixels using whatever method you choose, is to incrementally use "Image Size" in Photoshop to generate files that print well. (Yes, I have been told many times that this can't work, and I've done it for years with excellent results) Ini

Re: [PyMOL] rendering pictures to publish

2004-12-06 Thread Filipe Maia
For OpenGL-based images, you're limited by the maximum dimensions of your display. Hopefully that restriction will be eliminated before too much longer... Actually the restriction is how big a window your window manager supports, which can be bigger than your display. The png commands still ca

RE: [PyMOL] rendering pictures to publish

2004-12-06 Thread Warren DeLano
Alan, Right now, the only way to achieve such high resolutions is to ray trace using large width and height, save as PNG and then use a tool like Photoshop, GIMP, or Imagemagick save a TIF with the correct DPI value. For a 300 dpi rendered image at 4 by 3: ray 1200,900 save hi_res.png For OpenG

[PyMOL] rendering pictures to publish

2004-12-06 Thread Alan Wilter Sousa da Silva
Hi List! To be published I had to have my pictures, in pdf, eps ou tiff with such resolution: line artwork >= 1000 dpi haltone artwork >= 300 dpi combination artwork (line/tone) = > 500 dpi So, I ask how to achieve such resolution with Pymol (which I know to generate png). Any tip would be ve