Source code for morphforge.morphology.util.morphlocator
#!/usr/bin/python
# -*- coding: utf-8 -*-
# -------------------------------------------------------------------------------
# Copyright (c) 2012 Michael Hull.
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import numpy as np
import itertools
from morphforge.morphology.visitor.visitorfactory import SectionVistorFactory
from morphforge.morphology.core import MorphLocation
from morphforge.morphology.core import MorphPath
[docs]class MorphLocator(object):
@classmethod
[docs] def get_locations_at_distance_away_from_dummy(cls, morphology,
distance, section_predicate=None):
dist_to_section_distal = SectionVistorFactory.dict_section_distal_dist_from_soma(morph=morphology)()
# Section predicates: allows us to generate only on a path, region, etc
section_predicate = section_predicate if section_predicate else lambda s:True
locations = []
for section in morphology:
if not section_predicate(section):
continue
if section.is_a_root_section():
if distance < dist_to_section_distal[section]:
locations.append(MorphLocation(section=section, sectionpos=distance/dist_to_section_distal[section]) )
else:
pass
else:
proximal_dist = dist_to_section_distal[section.parent]
distal_dist = dist_to_section_distal[section]
# Does a distance fall on this section:
if proximal_dist <= distance < distal_dist:
prop = (distance - proximal_dist) / (distal_dist - proximal_dist)
assert 0.0 <= prop <= 1.0
locations.append(MorphLocation(section=section, sectionpos=prop))
dummy = MorphLocation(morphology.get_dummy_section().children[0], 0.0)
# Some sanity checking:
for loc in locations:
p = MorphPath(loc, dummy)
assert np.fabs(p.get_length() - distance) < 0.01
return locations
@classmethod
[docs] def get_locations_at_distances_away_from_dummy(cls, morphology, distances, section_predicate=None):
return list(itertools.chain(*[cls.get_locations_at_distance_away_from_dummy(morphology, distance, section_predicate=section_predicate) for distance in distances] ))