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. 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