Re: [PyMOL] Pymol under El Capitan

2015-12-11 Thread David Hall 
Try the last comment on:

https://github.com/Homebrew/homebrew-science/issues/2273

-David

On Fri, Dec 11, 2015 at 3:39 AM, Chris Swain  wrote:

> Hi,
>
> I maintain a list of science applications that work under El Capitan (
> http://www.macinchem.org/blog/files/c92b0faf48c1bb7dee5eeba1260cff43-1657.php)
> and I tried a pre installed version of Pymol and it worked without issue.
> However I have had a few readers email me saying they are having problems
> so I took a new machine running El Capitan and tried to instal a variety of
> cheminformatics tools including Pymol using Homebrew and PIP as described
> here (http://www.macinchem.org/reviews/cheminfo/cheminfoMac.php). All
> worked fine except Pymol which opened but crashed with the following error.
>
> Username:~ prompt$ pymol
>  PyMOL(TM) Molecular Graphics System, Version 1.7.6.0.
>  Copyright (c) Schrodinger, LLC.
>  All Rights Reserved.
>
>
> Created by Warren L. DeLano, Ph.D.
>
>
> PyMOL is user-supported open-source software.  Although some versions
> are freely available, PyMOL is not in the public domain.
>
>
> If PyMOL is helpful in your work or study, then please volunteer
> support for our ongoing efforts to create open and affordable
> scientific
> software by purchasing a PyMOL Maintenance and/or Support subscription.
>
> More information can be found at "http://www.pymol.org;.
>
>
> Enter "help" for a list of commands.
> Enter "help " for information on a specific command.
>
>  Hit ESC anytime to toggle between text and graphics.
>
>  Detected OpenGL version 2.0 or greater. Shaders available.
>  Detected GLSL version 1.20.
>  OpenGL graphics engine:
>   GL_VENDOR:   NVIDIA Corporation
>   GL_RENDERER: NVIDIA GeForce 8600M GT OpenGL Engine
>   GL_VERSION:  2.1 NVIDIA-10.0.40 310.90.10.05b12
>  Detected 2 CPU cores.  Enabled multithreaded rendering.
> libpng warning: Application built with libpng-1.6.19 but running with
> 1.5.23
> /usr/local/bin/pymol: line 4:  3628 Segmentation fault: 11
> "/usr/local/opt/python/bin/python2.7" "/usr/local/Cellar/pymol/
> 1.7.6.0/libexec/lib/python2.7/site-packages/pymol/__init__.py" "$@“
>
> Any suggestions?
>
> Cheers
> Chris
>
>
> --
>
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[PyMOL] Pymol under El Capitan

2015-12-11 Thread Chris Swain 
Hi,

I maintain a list of science applications that work under El Capitan 
(http://www.macinchem.org/blog/files/c92b0faf48c1bb7dee5eeba1260cff43-1657.php) 
and I tried a pre installed version of Pymol and it worked without issue. 
However I have had a few readers email me saying they are having problems so I 
took a new machine running El Capitan and tried to instal a variety of 
cheminformatics tools including Pymol using Homebrew and PIP as described here 
(http://www.macinchem.org/reviews/cheminfo/cheminfoMac.php). All worked fine 
except Pymol which opened but crashed with the following error.

Username:~ prompt$ pymol
 PyMOL(TM) Molecular Graphics System, Version 1.7.6.0.
 Copyright (c) Schrodinger, LLC.
 All Rights Reserved.
 
Created by Warren L. DeLano, Ph.D. 
 
PyMOL is user-supported open-source software.  Although some versions
are freely available, PyMOL is not in the public domain.
 
If PyMOL is helpful in your work or study, then please volunteer 
support for our ongoing efforts to create open and affordable scientific
software by purchasing a PyMOL Maintenance and/or Support subscription.

More information can be found at "http://www.pymol.org;.
 
Enter "help" for a list of commands.
Enter "help " for information on a specific command.

 Hit ESC anytime to toggle between text and graphics.

 Detected OpenGL version 2.0 or greater. Shaders available.
 Detected GLSL version 1.20.
 OpenGL graphics engine:
  GL_VENDOR:   NVIDIA Corporation
  GL_RENDERER: NVIDIA GeForce 8600M GT OpenGL Engine
  GL_VERSION:  2.1 NVIDIA-10.0.40 310.90.10.05b12
 Detected 2 CPU cores.  Enabled multithreaded rendering.
libpng warning: Application built with libpng-1.6.19 but running with 1.5.23
/usr/local/bin/pymol: line 4:  3628 Segmentation fault: 11  
"/usr/local/opt/python/bin/python2.7" 
"/usr/local/Cellar/pymol/1.7.6.0/libexec/lib/python2.7/site-packages/pymol/__init__.py"
 "$@“

Any suggestions?

Cheers
Chris--
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Re: [PyMOL] Pymol under El Capitan

2015-12-11 Thread Chris Swain 
That seems to have sorted things.

Many Thanks

Chris
> On 11 Dec 2015, at 13:14, David Hall  wrote:
> 
> Try the last comment on:
> 
> https://github.com/Homebrew/homebrew-science/issues/2273 
> 
> 
> -David
> 
> On Fri, Dec 11, 2015 at 3:39 AM, Chris Swain  > wrote:
> Hi,
> 
> I maintain a list of science applications that work under El Capitan 
> (http://www.macinchem.org/blog/files/c92b0faf48c1bb7dee5eeba1260cff43-1657.php
>  
> )
>  and I tried a pre installed version of Pymol and it worked without issue. 
> However I have had a few readers email me saying they are having problems so 
> I took a new machine running El Capitan and tried to instal a variety of 
> cheminformatics tools including Pymol using Homebrew and PIP as described 
> here (http://www.macinchem.org/reviews/cheminfo/cheminfoMac.php 
> ). All worked fine 
> except Pymol which opened but crashed with the following error.
> 
> Username:~ prompt$ pymol
>  PyMOL(TM) Molecular Graphics System, Version 1.7.6.0.
>  Copyright (c) Schrodinger, LLC.
>  All Rights Reserved.
>  
> Created by Warren L. DeLano, Ph.D. 
>  
> PyMOL is user-supported open-source software.  Although some versions
> are freely available, PyMOL is not in the public domain.
>  
> If PyMOL is helpful in your work or study, then please volunteer 
> support for our ongoing efforts to create open and affordable scientific
> software by purchasing a PyMOL Maintenance and/or Support subscription.
> 
> More information can be found at "http://www.pymol.org 
> ".
>  
> Enter "help" for a list of commands.
> Enter "help " for information on a specific command.
> 
>  Hit ESC anytime to toggle between text and graphics.
> 
>  Detected OpenGL version 2.0 or greater. Shaders available.
>  Detected GLSL version 1.20.
>  OpenGL graphics engine:
>   GL_VENDOR:   NVIDIA Corporation
>   GL_RENDERER: NVIDIA GeForce 8600M GT OpenGL Engine
>   GL_VERSION:  2.1 NVIDIA-10.0.40 310.90.10.05b12
>  Detected 2 CPU cores.  Enabled multithreaded rendering.
> libpng warning: Application built with libpng-1.6.19 but running with 1.5.23
> /usr/local/bin/pymol: line 4:  3628 Segmentation fault: 11  
> "/usr/local/opt/python/bin/python2.7" 
> "/usr/local/Cellar/pymol/1.7.6.0/libexec/lib/python2.7/site-packages/pymol/__init__.py
>  " "$@“
> 
> Any suggestions?
> 
> Cheers
> Chris
> 
> --
> 
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> 
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> 
> 

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