def construct_auxiliary_section(self, parent_section, child_section):
"""Construct an auxiliary section that connects the parent to the child, and add it to
the auxiliary sections list.
:param parent_section:
A reference to the parent section.
:param child_section:
A reference to the child section.
"""
# A list of samples
section_samples_list = list()
# Add the parent section samples
section_samples_list.extend(parent_section.samples_list)
# Add the child section samples
section_samples_list.extend(child_section.samples_list)
# Construct the section
section = vasculature_section.VasculatureSection(
-1, section_samples_list)
section.name = 'section_' + str(parent_section.index) + '_' + str(
child_section.index)
# Add the section to the auxiliary sections list
self.auxiliary_sections_list.append(section)
def build_sections_list(self):
"""Builds a list of all the sections in the morphology to be able to skeletonize it
"""
print('STATUS: Build sections list')
# For each section in the morphology sections list
for i_section in range(len(self.morphology_sections_list) - 1):
# The index of the first segment (or edge) along the section
initial_segment_index = self.morphology_sections_list[i_section]
# The index of the last segment (or edge) along the section
final_segment_index = self.morphology_sections_list[i_section + 1]
# Get a list that has all the samples of the section
section_samples_list = self.get_samples_on_section(
initial_segment_index, final_segment_index)
# Construct the section
section = vasculature_section.VasculatureSection(
i_section, section_samples_list)
# Add the section to the final list
self.sections_list.append(section)