Thank you so much!
Worked perfectly fine.
2016-01-29 13:08 GMT-02:00 Thomas Holder <thomas.hol...@schrodinger.com>:
> Hi Guilherme,
>
> Simply remove the __future__ import line from the script. The script will
> work just fine in PyMOL 1.3.
>
> Cheers,
> Thomas
>
> On 29 Jan 2016, at 09:00, Guilherme Souza <gsouza...@gmail.com> wrote:
>
> > Yes, it seems that this is exactly the problem. I'm using PyMOL 1.3, and
> the Python version it is using is 2.5.4...
> > Is there any way of fixing it without uninstalling my current version of
> PyMOL?
> >
> > 2016-01-29 11:57 GMT-02:00 Matthew Baumgartner <mp...@pitt.edu>:
> > What version of Pymol are you using? Pymol ships with it's own version
> of python that is separate from your system python.
> > In the pymol command line, run:
> >
> > import sys
> > print sys.version
> >
> > That will tell you what python version pymol is using.
> >
> > HTH,
> > Matt
> >
> >
> > On 01/29/2016 08:55 AM, Guilherme Souza wrote:
> >> I've searched about this kind of error, and in every site I look, it
> seems that it is caused by using Python <= 2.5, which is not my case. Is
> there any chance that my PyMOL is using and older version of Python?
> >>
> >> 2016-01-29 11:46 GMT-02:00 Guilherme Souza <gsouza...@gmail.com>:
> >> Okay. I did it, and kind of got the same error:
> >>
> >> PyMOL>run colorbyrmsd.py
> >> Traceback (most recent call last):
> >> File "C:\Program Files (x86)\PyMOL\PyMOL/modules\pymol\parser.py",
> line 338, in parse
> >> parsing.run_file(path,self.pymol_names,self.pymol_names)
> >> File "C:\Program Files (x86)\PyMOL\PyMOL/modules\pymol\parsing.py",
> line 455, in run_file
> >> execfile(file,global_ns,local_ns)
> >> SyntaxError: future feature print_function is not defined
> (colorbyrmsd.py, line 10)
> >>
> >> 2016-01-29 11:41 GMT-02:00 Matthew Baumgartner <mp...@pitt.edu>:
> >> 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>:
> >>> 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>:
> >>> 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>:
> >>> 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]
> >>> Sent: Friday, January 29, 2016 7:07 AM
> >>> To: 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.
>
> --
> Thomas Holder
> PyMOL Principal Developer
> Schrödinger, Inc.
>
>
------------------------------------------------------------------------------
Site24x7 APM Insight: Get Deep Visibility into Application Performance
APM + Mobile APM + RUM: Monitor 3 App instances at just $35/Month
Monitor end-to-end web transactions and take corrective actions now
Troubleshoot faster and improve end-user experience. Signup Now!
http://pubads.g.doubleclick.net/gampad/clk?id=267308311&iu=/4140
_______________________________________________
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
