cols = [[ 0. , 0. , 0.5 ],
[ 0. , 0.00196078, 1. ],
[ 0. , 0.50392157, 1. ],
[ 0.08538899, 1. , 0.88235294],
[ 0.49019608, 1. , 0.47754586],
[ 0.89500316, 1. , 0.07273877],
[ 1. , 0.58169935, 0. ],
[ 1. , 0.11692084, 0. ]]
nrnsBlender = []
matchOrigin = False
for nrnInd, nrn in enumerate(swcs):
if nrnInd == 0:
add = False
else:
add = True
tmpB = BlenderSWCImporter(nrn, add, matchOrigin, colMap=cols)
# tmpB.importSWC(cols[nrnInd])
tmpB.importWholeSWC()
nrnsBlender.append(tmpB)
import sys
sys.path.append('/home/ajay/repos/GJEMS/GJEMS/morph')
from blenderHelper import BlenderSWCImporter
print(sys.argv)
assert len(sys.argv) == 5, \
'This script takes only 5 arguments, with the path of the swcfile expected as the 5th arguement, but ' \
+ str(len(sys.argv)) + ' found'
swcFName = sys.argv[4]
abc = BlenderSWCImporter(swcFName, matchRootOrigin=False)
abc.importWholeSWC()
if nrnInd == 0:
add = False
else:
add = True
# tmpB = BlenderSWCImporter(nrn, add, matchOrigin, colMap=cols)
# tmpB.importWholeSWC()
# matchOrigin = True
sswcMaterials = []
for scolInd, scol in enumerate(Scols):
mat = bpy.data.materials.new("Material {}".format(scolInd))
mat.use_transparency = True
mat.diffuse_color = scol
mat.diffuse_intensity = 1.0
mat.alpha = alphas[scolInd]
mat.emit = emits[scolInd]
sswcMaterials.append(mat)
tmpB = BlenderSWCImporter(os.path.abspath(nrn),
add,
matchOrigin,
sswcMaterials=sswcMaterials,
restrictRadiusTo=0.00001)
tmpB.importWholeSWC(col=cols[nrnInd])
nrnsBlender.append(tmpB)
# tmpB.addSphere(position=[0, 0, 0], col=[1, 0, 0], radius=2)
# ----------------------------------------------------------------------------------------------------------------------
nrnsBlender = []
matchOrigin = False
scaleDownBy = 1
restrictRadiusTo = 0
for nrnInd, nrn in enumerate(swcs):
if nrnInd == 0:
add = False
else:
add = True
# tmpB = BlenderSWCImporter(nrn, add, matchOrigin, colMap=cols)
# tmpB.importWholeSWC()
# matchOrigin = True
tmpB = BlenderSWCImporter(os.path.abspath(nrn),
add,
matchOrigin,
colMap=Scols,
scaleDownBy=scaleDownBy,
restrictRadiusTo=restrictRadiusTo)
tmpB.importWholeSWC(col=cols[nrnInd])
nrnsBlender.append(tmpB)
# tmpB.addSphere(position=[0, 0, 0], col=[1, 0, 0], radius=2)
for nrnInd, nrn in enumerate(swcs):
if nrnInd == 0:
add = False
else:
add = True
# tmpB = BlenderSWCImporter(nrn, add, matchOrigin, colMap=cols)
# tmpB.importWholeSWC()
# matchOrigin = True
sswcMaterials = []
for scolInd, scol in enumerate(Scols):
mat = bpy.data.materials.new("Material {}".format(scolInd))
mat.use_transparency = True
mat.diffuse_color = scol
mat.diffuse_intensity = 1.0
mat.alpha = alphas[scolInd]
mat.emit = emits[scolInd]
sswcMaterials.append(mat)
tmpB = BlenderSWCImporter(os.path.abspath(nrn), add, matchOrigin, sswcMaterials=sswcMaterials)
tmpB.importWholeSWC(col=cols[nrnInd])
nrnsBlender.append(tmpB)
if nrnInd == 0:
add = False
else:
add = True
# tmpB = BlenderSWCImporter(nrn, add, matchOrigin, colMap=cols)
# tmpB.importWholeSWC()
# matchOrigin = True
sswcMaterials = []
for scolInd, scol in enumerate(Scols):
mat = bpy.data.materials.new("Material {}".format(scolInd))
mat.use_transparency = True
mat.diffuse_color = scol
mat.diffuse_intensity = 1.0
mat.alpha = alphas[scolInd]
mat.emit = emits[scolInd]
sswcMaterials.append(mat)
tmpB = BlenderSWCImporter(os.path.abspath(nrn),
add,
matchOrigin,
sswcMaterials=sswcMaterials)
tmpB.importWholeSWC(col=cols[nrnInd])
nrnsBlender.append(tmpB)
# tmpB.addSphere(position=[0, 0, 0], col=[1, 0, 0], radius=2)
# 'swcFiles/GoodSamplesDLInt1_v2/newlyEmerged/HB130523-3NS_3ptSoma_USTD.swc',
# 'swcFiles/GoodSamplesDLInt1_v2/newlyEmerged/HB130605-1NS_3ptSoma_USTD.swc',
# 'swcFiles/GoodSamplesDLInt1_v2/newlyEmerged/HB130605-2NS_3ptSoma_USTD.swc',
# 'swcFiles/GoodSamplesDLInt1_v2/newlyEmerged/HB130523-3NS_3ptSoma.swc',
# 'swcFiles/GoodSamplesDLInt1_v2/newlyEmerged/HB130605-1NS_3ptSoma.swc',
]
cols = [[0., 0., 0.5], [0., 0.00196078, 1.], [0., 0.50392157, 1.],
[0.08538899, 1., 0.88235294], [0.49019608, 1., 0.47754586],
[0.89500316, 1., 0.07273877], [1., 0.58169935, 0.],
[1., 0.11692084, 0.]]
nrnsBlender = []
matchOrigin = False
for nrnInd, nrn in enumerate(swcs):
if nrnInd == 0:
add = False
else:
add = True
tmpB = BlenderSWCImporter(nrn, add, matchOrigin, colMap=cols)
# tmpB.importSWC(cols[nrnInd])
tmpB.importWholeSWC()
nrnsBlender.append(tmpB)
import sys
sys.path.append('/home/aj/repos/BlenderSWCVizualizer')
from blenderHelper import BlenderSWCImporter
print(sys.argv)
assert len(sys.argv) == 5, \
'This script takes only 5 arguments, with the path of the swcfile expected as the 5th arguement, but ' \
+ str(len(sys.argv)) + ' found'
swcFName = sys.argv[4]
abc = BlenderSWCImporter(swcFName, matchRootOrigin=False)
abc.importWholeSWC([0, 0, 1])
from blenderHelper import BlenderSWCImporter
print(sys.argv)
assert len(sys.argv) == 5, \
'This script takes only 5 arguments, with the path of the swcfile expected as the 5th arguement, but ' \
+ str(len(sys.argv)) + ' found'
swcFName = sys.argv[4]
swcName = swcFName.rstrip('.swc')
ptSoma = False
if swcName[-8:] == '_3ptSoma':
ptSoma = True
swcName = swcName[:-8]
# partLabels = ['_AZ', '_DB', '_VB']
partLabels = ['-AZ', '-DB', '-VB']
cols = [[1, 0, 0], [0, 1, 0], [0, 0, 1]]
shouldAdd = False
blenderNrns = []
for partLabel, col in zip(partLabels, cols):
if not ptSoma:
partName = swcName + partLabel + '.swc'
else:
partName = swcName + partLabel + '_3ptSoma.swc'
nrn = BlenderSWCImporter(partName, add=shouldAdd, matchRootOrigin=False)
shouldAdd = True
blenderNrns.append(nrn)
nrn.importWholeSWC(col)
import sys
sys.path.append('/home/ajay/repos/GJEMS/GJEMS/morph')
from blenderHelper import BlenderSWCImporter
print(sys.argv)
assert len(sys.argv) == 5, \
'This script takes only 5 arguments, with the path of the swcfile expected as the 5th arguement, but ' \
+ str(len(sys.argv)) + ' found'
swcFName = sys.argv[4]
abc = BlenderSWCImporter(swcFName, matchRootOrigin=False)
abc.importWholeSWC()
assert len(sys.argv) == 5, \
'This script takes only 5 arguments, with the path of the swcfile expected as the 5th arguement, but ' \
+ str(len(sys.argv)) + ' found'
swcFName = sys.argv[4]
swcName = swcFName.rstrip('.swc')
ptSoma = False
if swcName[-8:] == '_3ptSoma':
ptSoma = True
swcName = swcName[:-8]
# partLabels = ['_AZ', '_DB', '_VB']
partLabels = ['-AZ', '-DB', '-VB']
cols = [[1, 0, 0], [0, 1, 0], [0, 0, 1]]
shouldAdd = False
blenderNrns = []
for partLabel, col in zip(partLabels, cols):
if not ptSoma:
partName = swcName + partLabel + '.swc'
else:
partName = swcName + partLabel + '_3ptSoma.swc'
nrn = BlenderSWCImporter(partName, add=shouldAdd, matchRootOrigin=False)
shouldAdd = True
blenderNrns.append(nrn)
nrn.importWholeSWC(col)
import sys
sys.path.append('/home/ajay/repos/GJEMS/GJEMS/morph')
from blenderHelper import BlenderSWCImporter
import numpy as np
print(sys.argv)
assert len(sys.argv) == 5, \
'This script takes only 5 arguments, with the path of the swcfile expected as the 5th arguement, but ' \
+ str(len(sys.argv)) + ' found'
sswcFName = sys.argv[4]
cols = np.asarray([[0., 0., 0.5], [0., 0.00196078, 1.], [0., 0.50392157, 1.],
[0.08538899, 1., 0.88235294], [0.49019608, 1., 0.47754586],
[0.89500316, 1., 0.07273877], [1., 0.58169935, 0.],
[1., 0.11692084, 0.]])
blenderObj = BlenderSWCImporter(sswcFName, colMap=cols, matchRootOrigin=False)
blenderObj.importWholeSWC()
# ---------------------------Emit values of SSWC Materials--------------------------------------------------------------
# ----------------------------------------------------------------------------------------------------------------------
emits = [1 for x in range(nPts)]
# ----------------------------------------------------------------------------------------------------------------------
# --------------------------Alpha values of SSWC Materials--------------------------------------------------------------
# ----------------------------------------------------------------------------------------------------------------------
alphas = [1 for x in range(nPts)]
# alphas = [1, 1, 1, 0.5, 0.5, 1, 1, 1]
# ----------------------------------------------------------------------------------------------------------------------
if nPts % len(baseCols) > 0:
raise(ValueError('nPts must be a integral multiple of ' + str(len(baseCols))))
cols = np.zeros([nPts, 3])
scaleFactor = int(nPts / len(baseCols))
for ind in range(3):
cols[:, ind] = np.interp(range(nPts), range(0, nPts, scaleFactor), baseCols[:, ind])
sswcMaterials = []
for scolInd, scol in enumerate(cols):
mat = bpy.data.materials.new("Material {}".format(scolInd))
mat.use_transparency = True
mat.diffuse_color = scol
mat.diffuse_intensity = 1.0
mat.alpha = alphas[scolInd]
mat.emit = emits[scolInd]
sswcMaterials.append(mat)
blenderObj = BlenderSWCImporter(sswcFName, sswcMaterials=sswcMaterials, matchRootOrigin=False)
blenderObj.importWholeSWC()