"""
Created on May 21, 2013
@author: Jamesan
"""
import numpy as np
from scipy.spatial import kdtree, distance
import networkx as nx
import connectome_analysis.datamodels.graphs.structurelocations as structurelocations
from connectome_analysis.enum import enum
iLoc = enum(X=0, Y=1, Z=2, Radius=3, ID=4)
_morphologyCache = {}
DefaultScalars = np.double([2.18, 2.18, -90]) # nm/pixel of our TEM @ 5000x in microns
DefaultScalars *= 0.001
def Load(structureID, useCache=True, XYZScalars=None):
if useCache:
if structureID in _morphologyCache:
return _morphologyCache[structureID]
structureLocationsGraph = structurelocations.Load(structureID)
morphology = Morphology(structureLocationsGraph)
if useCache:
_morphologyCache[structureID] = morphology
'''
Created on May 22, 2013
@author: u0490822
'''
import networkx as nx
import logging
import os
from connectome_analysis.enum import enum
SWCType = enum(UNDEFINED=0,
SOMA=1,
AXON=2,
DENDRITE=3,
APICAL_DENDRITE=4,
FORK_POINT=5,
END_POINT=6,
CUSTOM=7)
class SWCEntry(object):
@property
def location(self):
return self._location
@property
def swc_base_type(self):
'''Allows SOMA, AXON, APICAL_DENDRITE, or DENDRITE'''
'''
Created on May 21, 2013
@author: Jamesan
'''
import numpy as np
from scipy.spatial import kdtree, distance
import networkx as nx
import connectome_analysis.datamodels.graphs.structurelocations as structurelocations
from connectome_analysis.enum import enum
iLoc = enum(X=0,
Y=1,
Z=2,
Radius=3,
ID=4)
iBBox = enum(MinX=0,
MinY=1,
MinZ=2,
MaxX=3,
MaxY=4,
MaxZ=5,
ID=6)
_morphologyCache = {}
DefaultScalars = np.double([2.18, 2.18, -90]) # nm/pixel of our TEM @ 5000x in microns
DefaultScalars *= 0.001
