Re: [PyMOL] shadows commands

Thank you Annemarie! > On Apr 6, 2016, at 1:33 AM, Honegger Annemarie wrote: > > Hi Adam: > > The commands for shadow rendering are: > > util.ray_shadows('black') > util.ray_shadows('heavy') > util.ray_shadows('medium') > util.ray_shadows('light') >

Re: [PyMOL] pymolrc location

It should be a plain text file with no filename extension (i.e. no ".txt") in your home directory, with the full path: /Users/yourusername/.pymolrc You can do this with any text editor (including TextEdit--press Cmd-Shift-T to make it plain text), or, alternatively, the shell command: echo

Re: [PyMOL] pymolrc location

Thank you Jared! > On Apr 8, 2016, at 11:34 AM, Sampson, Jared M. > wrote: > > It should be a plain text file with no filename extension (i.e. no ".txt") in > your home directory, with the full path: > > /Users/yourusername/.pymolrc > > You can do this with any

Re: [PyMOL] pymolrc location

where in OS X is pymolrc located? > On Apr 7, 2016, at 2:39 PM, Thomas Holder > wrote: > > pymolrc H. Adam Steinberg 7904 Bowman Rd Lodi, WI 53555 608/592-2366 --

Re: [PyMOL] pymolrc location

Make a file at ~/.pymolrc -David > On Apr 8, 2016, at 10:35 AM, harold steinberg > wrote: > > where in OS X is pymolrc located? > >> On Apr 7, 2016, at 2:39 PM, Thomas Holder >> wrote: >> >> pymolrc > > H. Adam Steinberg > 7904

Re: [PyMOL] pymolrc location

Sorry to be inept… I've never had the opportunity to learn beyond the basics of Unix. create a txt file or create a pml file? Place it on the hard drive next to the library and system folder? Or place it in the User folder next to the library folder? > On Apr 8, 2016, at 9:47 AM, David Hall

Re: [PyMOL] Cryo Maps - gaussian isosurface

Thank you Thomas, that certainly works, but it’s not as smooth as Chimera. I took a bit of a crash course in Chimera and figured out how to gaussian the map and then export it as a .mrc file. I could then open that in PyMOL and proceed! > On Apr 8, 2016, at 2:56 PM, Thomas Holder

Re: [PyMOL] How to add multiline labels

Hi Amin, Multi-line labels are supported in Incentive PyMOL 1.7.0 and later. Simply use a linefeed character ("\n") to break a line. Examples: label all, "Hello\nWorld" label guide, resn + "\n" + resi See also the related label_multiline_* settings: http://pymol.org/d/setting:label Cheers,

Re: [PyMOL] Cryo Maps - gaussian isosurface

Hi Adam, As I understand, you want to do some low-pass smoothing on the map, correct? I'm not aware that this functionality would be available in PyMOL. However, PyMOL can downsample the map, which averages 8 voxels into 1 and thus also provides some level of smoothing. Try this: fetch

Re: [PyMOL] selecting faces and vertices in CGOs

Hi Albert, This is currently not possible and adding this would be a very major project. Cheers, Thomas On 30 Mar 2016, at 10:40, Albert Solernou wrote: > Dear All, > I was wondering if there is a way to select faces, vertices and/or edges > from a CGO either using