Tue, Jan 15, 2013 at 6:32 AM, Martin Hediger wrote:
> I'm no expert but I guess my favorite would be EPS. Converting to PDF, if
> required, is easy on the Mac.
>
> Best regards
> Martin
>
>
>
>
> On 14.01.13 23:53, Jason Vertrees wrote:
>>
>> Martin,
&
and experts. ON SALE this month only -- learn more at:
> http://p.sf.net/sfu/learnnow-d2d
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only -- learn more at:
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gt; MVPs and experts. ON SALE this month only -- learn more at:
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er solution.
For other neat rendering tricks, please see the PyMOLWiki's Gallery (
http://www.pymolwiki.org/index.php/Gallery).
Cheers,
-- Jason
--
Jason Vertrees, PhD
Director of Core Modeling Product Management
Schrödinger, Inc.
(e) jason.vertr...@schrodinger.com
(o) +
Hi Pascal,
hide nonbonded
Cheers,
Jason
Sent from my Android. Please excuse the concision and any typos.
On Jan 30, 2013 1:10 PM, "Pascal Auffinger" <
p.auffin...@ibmc-cnrs.unistra.fr> wrote:
> Hi,
>
> Just wondering how to remove the cross hair that is shown for each
> non-bonded atom
> (for
_
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. Check out the most
> recent posts - join the conversation now.
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Matthias,
As David said, try setting internal_gui to 0.
Or, try saving your session as a .psw instead of .pse.
Cheers,
Jason
Sent from my Android. Please excuse the concision and any typos.
On Mar 24, 2013 6:55 PM, "Matthias Haffke" wrote:
> Dear all,
>
> this might be a simple question, but
on of PyMOL v1.6, PyMOL on the iPad,
and even a sneak peek of Leap Motion (https://www.leapmotion.com/)
controller integration with PyMOL.
Cheers,
-- Jason
--
Jason Vertrees, PhD
Director of Core Modeling Products
Schrödinger, Inc.
(e) jason.vertr...@schrodinger.com
(o) +1 (603) 374
Hi Sabuj,
Do you have it working under linux?
>
Yes, I have demonstrated the same functionality on Ubuntu (12.10). Ubuntu
is the only Linux distro currently supported by Leap.
Cheers,
-- Jason
--
Jason Vertrees, PhD
Director of Core Modeling Products
Schrödinger, Inc.
(e) jason.ve
demo
> by 6/6/13. http://altfarm.mediaplex.com/ad/ck/12124-176961-30367-2
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://pymol.org/fellowship.
Interested applicants, please review the instructions before applying.
The application deadline is July 1, 2013.
Good luck!
Cheers,
-- Jason
--
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Director of Core Modeling Products
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(e) jason.vertr...@schrodinger.com
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ode. Try New Relic
> and get this awesome Nerd Life shirt! http://p.sf.net/sfu/newrelic_d2d_apr
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> Download your free book today! http://p.sf.net/sfu/neotech_d2d_may
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>
> security visibility with the essential security capabilities. Easily and
> efficiently configure, manage, and operate all of your security controls
> from a single console and one unified framework. Download a free trial.
> http://p.sf.net/sfu/alienvault_d2d
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---
enecks with <2% overhead
> Download for free and get started troubleshooting in minutes.
> http://p.sf.net/sfu/appdyn_d2d_ap1
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-
ail is sponsored by Windows:
>>
>> Build for Windows Store.
>>
>> http://p.sf.net/sfu/windows-dev2dev
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>> Info Page: https://lists.sourceforge.net/li
hat don't seem to have backward compatibility to PyMOL
> 1.3 from the open source version 1.6.0.0. Mostly it has to do with CGOs and
> measurements. Should I just send them to you and/or Thomas?
>
> Bob
>
>
>
> On Thu, Jun 20, 2013 at 7:36 AM, Jason Vertrees <
> jason.ver
@lists.sourceforge.net
> >
>
>
>
>
> --
> This SF.net email is sponsored by Windows:
>
> Build for Windows Store.
>
> http://p.sf.net/sfu/windows-dev2dev
> __
rk with anaglyph and might this
> be improved later?
Again, modern shaders do indeed work with PyMOL–I use them all the
time–your video card just has to be good enough and you need to be
using PyMOL v1.5 or later.
Cheers,
-- Jason
> From: Jason Vertrees
> Date: Wednesday, 26 J
ny 3D output.
>
GeForce cards are incapable of presenting windowed OpenGL 3D at 120 Hz. You
need a Quadro card. The NVidia 3D Vision (
http://www.nvidia.com/object/3d-vision-main.html) page should have all the
info you need.
Cheers,
-- Jason
--
Jason Vertrees, PhD
Director of Core Modeling Produ
ail is sponsored by Windows:
>
> Build for Windows Store.
>
> http://p.sf.net/sfu/windows-dev2dev
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apply. For
more information on the stipend, application rules, terms, etc., please see
the main fellowship page on our website: http://pymol.org/fellowship.
Cheers,
-- Jason
On Thu, Apr 25, 2013 at 9:31 AM, Jason Vertrees <
jason.vertr...@schrodinger.com> wrote:
> Greetings,
>
&g
veRMS: RMS =0.083 (4 to 4 atoms)
Mutagenesis: 12 rotamers loaded.
where the RMS will change based on your residues.
Cheers,
-- Jason
--
Jason Vertrees, PhD
Director of Core Modeling Products
Schrödinger, Inc.
(e) jason.vertr...@schrodinger.com
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Schrödinge
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pping up. For me (and likely others now or in the future),
> pymol would really make it a complete mobile device.
>
> --p
>
> On 07/17/2013 12:02 PM, Jason Vertrees wrote:
>> Hi Paul,
>>
>> It's been done already. See, PyMOL on the iPad (http://pymol.org/mobile)
; PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net)
> Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users
> Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net
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resources for efficient Application Performance Management.
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(o) +1 (603) 374-
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> includes
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il I close the program. I
> guess this is rather a bug than intended?
>
> Best,
> Nils
>
>
>
> Gesendet: Donnerstag, 19. September 2013 um 17:39 Uhr
> Von: "Jason Vertrees"
> An: "Nils NN"
> Cc: "pymol-users@lists.sourceforge.net&q
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pen Source Fellowship
Program and the fellows here http://pymol.org/fellowship.
I look forward to seeing their code in action and its positive effects
on the community.
Cheers,
-- Jason
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(o) +1 (603) 374-7120
---
hose files.
>>
>> Cheers,
>>
>> Osvaldo.
>>
>>
>>
>> On Fri, Oct 11, 2013 at 12:12 AM, Jason Vertrees
>> wrote:
>>>
>>> Hi Osvaldo,
>>>
>>> This isn't built in yet. But, if you need to do that, you can edit the
>
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J
> paper to learn more about secure code signing practices that can help keep
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> In
> May a ticket be filled ?
>
> Jerome
>
> On 05/11/13 15:34, Jason Vertrees wrote:
>> Hi Jerome,
>>
>> PyMOL doesn't yet handle cyclic peptides. It's an open case we hope to
>> resolve soon.
>>
>> Cheers,
>>
>> -- Jason
>>
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n up now.
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-
PM, Павел Томашевский wrote:
> 2013/11/24 Jason Vertrees :
> > Hi,
> Hi Jason
>
> > Is there any chance you can send me your input file(s)? Also, please let
> me
> > know what computer, video card, and architecture (32-bit/64-bit) you're
> > running on
versity of Oxford
> Roosevelt Drive,
> Oxford OX3 7BN, UK
>
> Email: jonat...@strubi.ox.ac.uk, Web: www.strubi.ox.ac.uk
> Tel: (+44) - 1865 - 287561, FAX: (+44) - 1865 - 287547
>
> On 12 Dec 2012, at 17:24, Jason Vertrees
> wrote:
>
> > Hi Jon,
> >
> &
OL-users mailing list (PyMOL-users@lists.sourceforge.net)
> Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users
> Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net
--
Jason Vertrees, Ph
-----
> Rapidly troubleshoot problems before they affect your business. Most IT
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> affects their revenue. With AppDynamics, you get 100% visibility into your
> Java,.NET,
s@lists.sourceforge.net)
> Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users
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>
--
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Director of Core Mo
any feedback and bug reports.
Cheers,
-- Jason
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Director of Core Modeling Products
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>
writing a script, figuring
> that it should just be an option in 'create'. That is, if the selection
> old_obj has a wild card, then
> create new_obj, old_obj*,1,-1
> should work. Clearly not; could this be a future feature?
>
> Jed
>
>
>
>
> On 1/16/201
Michael,
Nice catch—we'll fix it. Thanks for letting us know.
Cheers,
-- Jason
On Mon, Jan 20, 2014 at 9:11 AM, Michael Banck wrote:
> Hi,
>
> On Tue, Jan 14, 2014 at 05:11:51PM -0600, Jason Vertrees wrote:
> > We are happy to announce the release of PyMOL v1.7.0.0!
&
rge.net/lists/listinfo/pymol-users
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>
--
Jason Vertrees, PhD
Director o
27 AM, Justin Lecher wrote:
> On 22/11/13 17:44, Jason Vertrees wrote:
> > Hi Justin,
> >
> > We'll fix that, too.
> >
> > Cheers,
> >
> > -- Jason
> >
> >
>
> Hi Jason,
>
> did you find time to look into that?
>
> Tha
Everything In Between.
> Get a Quote or Start a Free Trial Today.
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t;
> Carsten
>
>
> --
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> security intelligence. It gives you real-time visual feedback on key
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would like to learn more
about this free
online course visit https://www.coursera.org/course/bioinfomethods2.
Cheers,
-- Jason
--
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Director of Core Modeling Products
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--
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Director of Core Modeling Produ
> 157 71 Athens
> GREECE
>
> email:
> tev...@pharm.uoa.gr
>
> teva...@gmail.com
>
>
> website:
> thomasevangelidishomepage<https://sites.google.com/site/thomasevangelidishomepage/>
>
>
>
--
Jason
Lano. He was an amazing man whose ideas and actions have touched the
lives of millions, whether they know it or not. He is missed.
It's been great fun. I wish you all the best.
Cheers,
-- Jason
--
Jason Vertrees, PhD
(e) jason.vertr...
e been fixed. Please let me know if you find any other
problems.)
Please join me in thanking Microlytic <http://Melanie Adams-Cioaba
> for helping serve the PyMOL community.
Cheers,
-- Jason
--
Jason Vertrees, PhD
(e) jason.vertr...@gmail.com
(o) +1 (6
Hi Suzanne,
Everything should look and act exactly like it has in the past, including
the address.
Cheers,
-- Jason
--
Jason Vertrees, PhD
(e) jason.vertr...@gmail.com
(o) +1 (603) 374-7120
On Fri, Jun 20, 2014 at 10:18 AM, Lapolla, Suzanne M (HSC) <
suzanne-lapo...@ouhsc.edu>
Greetings,
It's been a while, I hope this message finds everyone well.
I'm writing to briefly let you know that I recently moved, upgraded, and
reinstalled/fixed search on the PyMOLWiki. It should be, hopefully, fast
and more useful. Feel free to report any bugs.
Back to the startup-life.
Cheer
ase server: Can't connect to local MySQL server
> through socket '/var/run/mysqld/mysqld.sock' (111) (localhost))
>
> Is there a mirror anywhere that can be used?
>
> Shane Caldwell
> McGill University
>
> On Wed, Sep 9, 2015 at 1:02 AM, Jason Vertrees
&g
x27;s down?
>
> Any page returns:
>
> (Can't contact the database server: Can't connect to local MySQL server
> through socket '/var/run/mysqld/mysqld.sock' (111) (localhost))
>
> Is there a mirror anywhere that can be used?
>
> Shane Caldwell
Greetings PyMOLers,
Traffic on the PyMOLWiki continues to grow. It serves far over 100k page
views/month. In 2015 we got traffic from almost every country on the
planet. Very cool.
While operating well, the site, schemas, and plugins were outdated. So, I
went through and upgraded everything (and
Greetings,
I just discovered that the PyMOLWiki was failing due to memory limitations.
I doubled the RAM on the instance and restarted it. We should be good for a
while.
Cheers,
-- Jason
--
Site24x7 APM Insight: Get Deep
about.
Feel free to add any PyMol hints or tips to the wiki if you have one.
-- Jason
--
Jason Vertrees
BSCB Graduate Student @ UTMB, Galveston
javer...@utmb.edu :: http://www.bscb.utmb.edu
PyMol Wiki:: http://www.pymolwiki.org
Vertrees dot Org :: http://www.vertrees.org
is regard.
>
> Thank you,
>
> praedor
--
Jason Vertrees
BSCB Graduate Student @ UTMB, Galveston
javer...@utmb.edu :: http://www.bscb.utmb.edu
PyMol Wiki:: http://www.pymolwiki.org
Vertrees dot Org :: http://www.vertrees.org
t the Wiki
improvement page and leave a comment
(http://www.pymolwiki.org/index.php/Improvements).
Cheers,
-- Jason
--
Jason Vertrees
javer...@utmb.edu
me any website to upload it, so
> I would like to ask if somebody has space ina server
> and wants to upload it.
> Even if it remains offline, If you think you can give
> it some use, just write me and I will send it (I guess
> it will be under the python's license)
>
> Regards,
>
> Ra?l
--
Jason Vertrees
http://vertrees.org/
http://pymolwiki.org/
http://best.utmb.edu/
on code fast or whenever I get the
C/C++ code properly plugged into PyMol. (The C++ code on my machine aligns
two 400+ residue proteins in about 0.250 seconds; the Python code for 167
residue proteins, 35 seconds!)
Please forward bugs/comments to me, address below.
Cheers,
-- Jason
--
Jason
ail (see attached address).
Cheers,
-- J
--
Jason Vertrees
http://vertrees.org/
http://pymolwiki.org/
http://best.utmb.edu/
,
--
Jason Vertrees (javer...@utmb.edu)
http://vertrees.org/ -- HOME
http://pymolwiki.org/ -- PyMol Wiki
http://best.utmb.edu/ -- Protein Science
http://www.andeanimporters.com/ -- Biz.
eone tell me how to perform superimposition of two or more ligands
> from different PDBs?
>
> Thanks in advance.
>
> Feng.
--
Jason Vertrees (javer...@utmb.edu)
http://vertrees.org/ -- HOME
http://pymolwiki.org/ -- PyMol Wiki
http://best.utmb.edu/ -- Protein Science
http://www.andeanimporters.com/ -- Biz.
27;ve also installed the captcha image for
automated spam protection. I will leave the wiki open like this until
spammers prove the change unwise.
-- Jason
--
Jason Vertrees
http://vertrees.org/
http://pymolwiki.org/
http://best.utmb.edu/
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