Re: [PyMOL] PyMOLWiki: Quick Update

Thank you Jason! > On Oct 19, 2015, at 9:34 PM, Jason Vertrees wrote: > > Greetings Shane, et. al., > > The issue with the database connection should be fixed permanently now. > Search should also be consistently better. > > I've independently owned and run the wiki for almost a decade now. I

Re: [PyMOL] PyMOLWiki: Quick Update

Greetings Shane, et. al., The issue with the database connection should be fixed permanently now. Search should also be consistently better. I've independently owned and run the wiki for almost a decade now. It's heading toward 22 million page views. Anyhow, it's now on good hardware (SSD, lots o

Re: [PyMOL] change electrostatic ramp color?

Great, I'm glad that you found the solution! On Mon, Oct 19, 2015 at 7:10 PM, H. Adam Steinberg < h.adam.steinb...@gmail.com> wrote: > Thank you Osvaldo for taking time to answer all the questions this morning! > > I tried but failed to recolor the ramp. > > Then an idea hit me, maybe the red in

[PyMOL] how to enable 3D

Hello: I just notice that nowadays the webGL and xml5 technology developed so fast that many new tools emerging these days. I am really impressed by the GLMOL tool for pymol recently. It is really powerful. I am just wondering is it possible to enable anaglyph or side by side stereo for GLMOL

Re: [PyMOL] pymol to webGL?

Dear Osvaldo: Thanks a lot for further information. I just run the command |set pse_export_version, 1.72 | before I load anything to pymol, then followed the step for exporting. But it still failed with messages: Traceback (most recent call last): File "/home/albert/install/pymol/modules

Re: [PyMOL] change electrostatic ramp color?

Thank you Osvaldo for taking time to answer all the questions this morning! I tried but failed to recolor the ramp. Then an idea hit me, maybe the red in the ramp was changed to green so I opened the color setting panel and yes, the red was changed to green. I don’t remember why since that fil

Re: [PyMOL] Pymol Morph movie error

David, Incentive PyMOL does bundle mpeg_encode.exe and uses it for movie export. It is also available from http://freemol.org Hans, what Windows version do you use? I can't reproduce this problem on Windows 7 or 8. Cheers, Thomas On 19 Oct 2015, at 10:44, David Hall wrote: > there is no mp

Re: [PyMOL] lipid membrane help

You could also do this in sections building up to the amount of lipids you need. Create and Rotate 3 lipids. Select, Duplicate and rotate one set of three so you now have 6 lipids. Select, Duplicate and rotate on set of 6 so you now have 12 lipids. Continue on…+ > On Oct 19, 2015, at 9:23 AM, Os

Re: [PyMOL] on cartoon representation

Hi Smith, There are several setting you could change to modify the way helices (and loops and beta strands) are rendered. Try with this page and let us know if you find something useful or you have further doubts. Cheers, Osvaldo. On Wed, Oc

Re: [PyMOL] Pymol Morph movie error

there is no mpeg_encode.exe binary. mpeg_encode, as far as I am aware, has long been abandoned. You can find what I believe is the last version of the source code (1.5c) at https://build.opensuse.org/package/show/home:cowsandmilk/mpeg_encode , you can download by clicking the files with the up arr

Re: [PyMOL] lipid membrane help

Hi Nhi, You can use the Rotate . You just need to specify the correct selection. If you have any other doubt, please ask. Cheers, Osvaldo. On Mon, Oct 12, 2015 at 9:45 PM, Tran,Nhi T wrote: I want to rotate the lipid molecules in the outer leaflet to form

Re: [PyMOL] volume measurement

Hi Smith, I am not sure that there is an out-of-the-box function in PyMOL to compute what you want. May be you would like to check the 3v website. Cheers, Osvaldo. On Sat, Oct 10, 2015 at 10:40 AM, Smith Liu wrote: Dear All, > > If there is a cleft (looks like lette

Re: [PyMOL] change electrostatic ramp color?

Hi Adam, Now that the PyMOL wiki is back, did you find the solution at the Ramp_New Wiki page? Cheers, Osvaldo. On Fri, Oct 16, 2015 at 9:10 PM, H. Adam Steinberg < h.adam.steinb...@gmail.com> wrote: I opened a complex .pse file I created back in 2007 and the electrostatic > ramp is showing as

Re: [PyMOL] Remove my email

Hi Sabi, Please follow this link or the link at the bottom of every e-mail from the PyMOL mailing list. Cheers, Osvaldo. On Mon, Oct 19, 2015 at 3:57 PM, Sabi wrote: How can I remove my email from the list I keep getting emails for som

[PyMOL] Remove my email

How can I remove my email from the list I keep getting emails for something I don't use. At all pymol. -- ___ PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) Info P

[PyMOL] Pymol Morph movie error

Dear Pymol community, Im using Pymol 1.7.6 and created a morph movie. Looks nice on screen! However when I tried to save the movie, I get an error: -- produce: creating 'C:/Users/hcvanleeuwen/Desktop/test2.mpg' (in background)... please wait ... Error: mpeg_encode did not run T