Re: [modeller_usage] modeling with multiple sequence alignment.

[flavio seixas <>]

Hi,

For multiple templates try to follow this example:

http://salilab.org/modeller/9.10/manual/node21.html

Try to put those lines below, at the end of your script model-multiple.py script.
It will display the top five models at the end of your model-multiple.log file.


# Get a list of all successfully built models from a.outputs
ok_models = filter(lambda x: x['failure'] is None, a.outputs)
 
# Rank the models by DOPE score
key = 'DOPE score'
ok_models.sort(lambda a,b: cmp(a[key], b[key]))

# Get top model
m = ok_models[0]

print "Top model 1: %s (DOPE score %.3f)" % (m['name'], m[key])
m = ok_models[1]

print "Top model 2: %s (DOPE score %.3f)" % (m['name'], m[key])
m = ok_models[2]

print "Top model 3: %s (DOPE score %.3f)" % (m['name'], m[key])
m = ok_models[3]

print "Top model 4: %s (DOPE score %.3f)" % (m['name'], m[key])
m =
 ok_models[4]

print "Top model 5: %s (DOPE score %.3f)" % (m['name'], m[key])



Regards,

Flavio




--- On Mon, 12/10/12, Krupal Jethava <> wrote:

From: Krupal Jethava <>
Subject: [modeller_usage] modeling with multiple sequence alignment.
To: 
Date: Monday, December 10, 2012, 11:26 AM

Dear Sir,   I am trying to use modeller for multiple sequence alignment but I got error while running script for DOPE score. will you guide from the beginning. how to make input file and which script should I use for that. Thanks. 

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