Re: [modeller_usage] batch model building

[Modeller Caretaker <>]

On 05/02/2011 07:16 AM, Vagmita Pabuwal wrote:
> I was wondering if we can build models in batch if we are using same
> template, but different alignment, so for each alignment we have new
> model. And this could be automated.

Of course - Modeller scripts are just Python scripts, so you can write 
as complicated a pipeline as you like in Python. Here's a really simple 
example:

from modeller import *
from modeller.automodel import *

log.verbose()
env = environ()

model_num = 1
for aln, tmpl in [('align1.ali', 'code1'),
                  ('align2.ali', 'code2'),
                  ('align3.ali', 'code3'):
    a = automodel(env, alnfile=aln, knowns=tmpl, sequence='seq')
    a.starting_model = a.ending_model = model_num
    a.make()
    model_num += 1

	Ben Webb, Modeller Caretaker
--
             http://www.salilab.org/modeller/
Modeller mail list: http://salilab.org/mailman/listinfo/modeller_usage