i am trying to run a python script that is written by salilab as a tutorial for modeller software. there is a python file in this tutorial with this code:
import pylab
import modeller
def r_enumerate(seq):
"""Enumerate a sequence in reverse order"""
# Note that we don't use reversed() since Python 2.3 doesn't have it
num = len(seq) - 1
while num >= 0:
yield num, seq[num]
num -= 1
def get_profile(profile_file, seq):
"""Read `profile_file` into a Python array, and add gaps corresponding to
the alignment sequence `seq`."""
# Read all non-comment and non-blank lines from the file:
f = open(profile_file)
vals = []
for line in f:
if not line.startswith('#') and len(line) > 10:
spl = line.split()
vals.append(float(spl[-1]))
# Insert gaps into the profile corresponding to those in seq:
for n, res in r_enumerate(seq.residues):
for gap in range(res.get_leading_gaps()):
vals.insert(n, None)
# Add a gap at position '0', so that we effectively count from 1:
vals.insert(0, None)
return vals
e = modeller.environ()
a = modeller.alignment(e, file='TvLDH-1bdmA.ali')
template = get_profile('1bdmA.profile', a['1bdmA'])
model = get_profile('TvLDH.profile', a['TvLDH'])
# Plot the template and model profiles in the same plot for comparison:
pylab.figure(1, figsize=(10,6))
pylab.xlabel('Alignment position')
pylab.ylabel('DOPE per-residue score')
pylab.plot(model, color='red', linewidth=2, label='Model')
pylab.plot(template, color='green', linewidth=2, label='Template')
pylab.legend()
pylab.savefig('dope_profile.png', dpi=65)
when i try to run the program in cmd, i got an error : No Module named pylab but i've alredy insstalled matplotlib, numpy and scipy and also when i run it in visual studio there is no problem. can anyone help me understand what the problem is?
