5.1.1.3. ProvidesRecordingLocationsOnTrunk

class ProvidesRecordingLocationsOnTrunk

Bases: sciunit.capabilities.Capability

Indicates that the model provides a list of locations on the trunk (primary apical dendrite) to be tested

Methods Summary

find_trunk_locations(distances, tolerance, …)	This function must be implemented by the model.
find_trunk_locations_multiproc(distances, …)	This function is called by the test and calls the find_trunk_locations() function.

Methods Documentation

find_trunk_locations(distances, tolerance, trunk_origin)

This function must be implemented by the model.

Must return two dictionaries

(1) keys: distances, values: corresponding locations on the trunk (primary apical dendrite) in list at 50, 105, 250, 350 um distances from the soma The form must be: dend_locations = (dist1, [‘trunk_segment1_1’,location],[‘trunk_segment1_2’,location]), (dist2, [‘trunk_segment2’,location]), (dist3, [‘trunk_segment3’,location]), (dist4, [‘trunk_segment4’,location]) E.g. : OrderedDict([(50, [‘dendrite[0]’, 0.6956994222486329]), (150, [‘dendrite[81]’, 0.5557523508251703]), (250, [‘dendrite[109]’, 0.33250043844278565])])

(2) keys: locations on the trunk, values: its actual distance from the soma. The form must be: actial distances = ((‘trunk_segment1_1’,location), distance), ((‘trunk_segment2’,location), distance), ([‘trunk_segment3’,location], distance) E.g. : {(‘dendrite[95]’, 0.5): 191.4537639215934, (‘dendrite[91]’, 0.5): 186.10161451767556}

Parameters

• distances (list) – list of dinstances from the soma to be considered. Eg.: [50,150,250,350]

• tolerance (int) – number indicating the range around the distance values in the distances list to be considered. If tolerance = 20, first distance range will be 50+-20 um.

• trunk_origin (list) – first element : name of the section from which the trunk originates, second element : position on section (E.g. [‘soma[5]’, 1]). If not set by the user, the end of the default soma section is used.

find_trunk_locations_multiproc(distances, tolerance, trunk_origin)

This function is called by the test and calls the find_trunk_locations() function. Used to keep all NEURON related tasks in independent processes, to avoid errors like ‘template can not be redefined’