Hi,
You run the command 'run colorbyrmsd.py' in the Pymol command line. That
initializes the function in pymol. If everything goes well, you
shouldn't see anything (no errors). Then to use the command, type just
'colorbyrmsd [args...]' into the command line.
You can see the usage instructions in the wiki.
HTH,
Matt Baumgartner
On 01/29/2016 08:36 AM, Guilherme Souza wrote:
I'm sorry.. Where exactly am I supposed to type 'run colorbyrmsd.py'?
And should I expect to see my both protein structures colored in the
PyMOL interface?
Thank you!
2016-01-29 11:36 GMT-02:00 Guilherme Souza <gsouza...@gmail.com
<mailto:gsouza...@gmail.com>>:
I'm sorry.. Where exactly am I supposed to type 'run colorbyrmsd.py'?
And should I expect to see my both protein structures colored in
the PyMOL interface?
2016-01-29 11:35 GMT-02:00 Guilherme Souza <gsouza...@gmail.com
<mailto:gsouza...@gmail.com>>:
I'm sorry.. Where exactly am I supposed to type 'run
colorbyrmsd.py'?
And should I expect to see my both protein structures colored
in the PyMOL interface?
Thank you!
2016-01-29 11:09 GMT-02:00 Schubert, Carsten [JRDUS]
<cschu...@its.jnj.com <mailto:cschu...@its.jnj.com>>:
Hi Guilherme,
the script is not a plugin, so you cannot install it since
it is missing some software infrastructure to work as a
plugin. Simply put the script into the directory you are
working in and run it via ‘run colorbyrmsd.py’ . This will
add the command to the scripting interface and you can run
the command like any other pymol command. See the wiki for
the details in that regards.
HTH
Carsten
*From:*Guilherme Souza [mailto:gsouza...@gmail.com
<mailto:gsouza...@gmail.com>]
*Sent:* Friday, January 29, 2016 7:07 AM
*To:* pymol-users@lists.sourceforge.net
<mailto:pymol-users@lists.sourceforge.net>
*Subject:* [PyMOL] ColorByRMSD script
Hi.
I'm a starter in PyMOL, and I'm trying to use this script,
ColorByRMSD
(http://www.pymolwiki.org/index.php/ColorByRMSD). However,
I'm getting the following error message, when I initialize
PyMOL after installing the plugin:
Exception in plugin 'colorbyrmsd' -- Traceback follows...
Traceback (most recent call last):
File "C:\Program Files
(x86)\PyMOL\PyMOL/modules\pmg_tk\PMGApp.py", line 313, in
initializePlugins
__builtin__.__import__(mod_name)
SyntaxError: future feature print_function is not defined
(colorbyrmsd.py, line 10)
Error: unable to initialize plugin 'colorbyrmsd'.
I'm using Python 2.7, and I've already checked
'__future__' module, and 'print_function' is there, so I
don't know what could be causing this.
I'd be glad if anyone could give me a help.
Thank you.
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