Hi Suhaila,
I uploaded a modified version (2.1) of the contact map visualizer
plugin. It now provides a command so it can be called from command line.
This will also work if you "run" the script instead of installing it as
a plugin.
USAGE
contact_map_visualizer [ image_file [, selection ]]
The plugin now can convert XPM automatically to PNG (again requires the
"Image" module from PIL).
Furthermore, if gromacs is installed properly (more precisely: g_mdmat
is found in PATH from a running PyMOL session), the plugin now can also
generate contact maps on the fly if you do not provide the image_file
argument.
Hope this all works and will make your task easier.
Cheers,
Thomas
On 03/22/2012 02:14 AM, Suhaila Haji Mohd Hussin wrote:
> Nobody has replied this yet. I still need to know.
>
> Cheers,
> Suhaila.
>
> ------------------------------------------------------------------------
> From: bell_beaut...@hotmail.com
> To: pymol-users@lists.sourceforge.net
> Subject: Query of running script of Contact Map Visualizer Plugin
> Date: Wed, 21 Mar 2012 00:41:20 +1200
>
> Hello
>
> I know the plugin mentioned above (in the Subject) will work if I go to
> Plugin > Manage Plugins > Install > contact_map_visualizer
>
> I get that.
>
> But nothing happens if I run the plugin if I go to File > Run >
> contact_map_visualizer.py I do this because I need it for my project,
> preferably running the script via this method.
>
> Can anyone please tell me why it is not working on the second method? I
> know it's a plugin and it's just a python script anyway, no?
>
> Regards,
> *Suhaila*
--
Thomas Holder
MPI for Developmental Biology
Spemannstr. 35
D-72076 Tübingen
------------------------------------------------------------------------------
This SF email is sponsosred by:
Try Windows Azure free for 90 days Click Here
http://p.sf.net/sfu/sfd2d-msazure
_______________________________________________
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
