Re: [PyMOL] Install license file from CLI

2020-06-18 Thread Thomas Holder
Hi Antonio, Did you install PyMOL into $HOME/anaconda3 ? If you installed into a different location, then that path to the license file will differ of course. Basically, path-to-pymol-dir/share/pymol/license.lic is the path. Cheers, Thomas > On Jun 17, 2020, at 2:15 PM, Antonio Serrano wrot

[PyMOL] color by index

2020-06-18 Thread Chen, Qiang
Will spectrum just works for your purpose? spectrum count, blue red, yourprotein, byres=1 you can switch off byres if you really want color by atom index. Charles > hello everyone! > I am trying to color an explicit distribution by color (say blue to red) > pls help me with the command color

Re: [PyMOL] Install license file from CLI

2020-06-18 Thread Antonio Serrano
Hi Thomas. Thanks for your quick response. I installed Miniconda, so I put the license file (pymol-edu-license.lic) in the following path: $HOME/miniconda3/share/pymol/ . But a warning text stating "No License File - For evaluation Only (0 days remaining)" still appears when rendering PNG files wit

Re: [PyMOL] Install license file from CLI

2020-06-18 Thread Thomas Holder
Hi Antonio, Rename the file to "license.lic". Cheers, Thomas > On Jun 18, 2020, at 6:08 PM, Antonio Serrano wrote: > > Hi Thomas. Thanks for your quick response. I installed Miniconda, so I put > the license file (pymol-edu-license.lic) in the following path: > $HOME/miniconda3/share/pymo

[PyMOL] transparent electron density silhouette

2020-06-18 Thread Daniel P Farrell
Hello, I'm working with some cryo-EM density and I'm trying to get my isosurface or volume (whichever's easier) to display transparent except for the curves and turns of the density. similar to this (done in chimeraX) https://imgur.com/a/lZuG8gD Does anyone know if this is possible? thanks ~Dan _