def show(T,A,IND,VERTS,scale):
r=fvtk.ren()
fvtk.clear(r)
fvtk.add(r,fvtk.line(T,fvtk.red))
fvtk.show(r)
Td=[downsample(t,20) for t in T]
C=local_skeleton_clustering(Td,3)
fvtk.clear(r)
lent=float(len(T))
for c in C:
color=np.random.rand(3)
virtual=C[c]['hidden']/float(C[c]['N'])
if length(virtual)> virtual_thr:
linewidth=100*len(C[c]['indices'])/lent
if linewidth<1.:
linewidth=1
#fvtk.add(r,fvtk.line(virtual,color,linewidth=linewidth))
#fvtk.add(r,fvtk.label(r,str(len(C[c]['indices'])),pos=virtual[0],scale=3,color=color ))
#print C[c]['hidden'].shape
print A.shape
print IND.shape
print VERTS.shape
all,allo=fvtk.crossing(A,IND,VERTS,scale,True)
colors=np.zeros((len(all),3))
for (i,a) in enumerate(all):
if allo[i][0]==0 and allo[i][1]==0 and allo[i][2]==1:
pass
else:
colors[i]=cm.boys2rgb(allo[i])
fvtk.add(r,fvtk.line(all,colors))
fvtk.show(r)
dcross_shift = [c + np.array([3, 8, 6]) for c in dcross]
fvtk.add(r, fvtk.line(no_cross_shift, fvtk.blue, linewidth=5.))
fvtk.add(r, fvtk.line(cross_shift, fvtk.indigo, linewidth=5.))
fvtk.add(r, fvtk.line(dcross_shift, fvtk.red, linewidth=5.))
from dipy.viz import colormap as cm
all_shift = [c + np.array([10, 0, 0]) for c in all]
all_shift2 = [c + np.array([20, 0, 0]) for c in all]
colors = np.zeros((len(all), 3))
colors2 = np.zeros((len(all), 3))
for (i, a) in enumerate(all):
#print a[0]
colors[i] = cm.boys2rgb(allo[i])
colors2[i] = cm.orient2rgb(allo[i])
fvtk.add(r, fvtk.line(all_shift, colors, linewidth=1.))
fvtk.add(r, fvtk.line(all_shift2, colors2, linewidth=2.))
"""
.. figure:: visualize_cross1000000.png
:align: center
**The crossings of a region of interest shown with one color, or boy2rgb or standard orient2rgb colormap**.
.. include:: ../links_names.inc
"""
dcross_shift=[c+np.array([3,8,6]) for c in dcross]
fvtk.add(r,fvtk.line(no_cross_shift,fvtk.blue,linewidth=5.))
fvtk.add(r,fvtk.line(cross_shift,fvtk.indigo,linewidth=5.))
fvtk.add(r,fvtk.line(dcross_shift,fvtk.red,linewidth=5.))
from dipy.viz import colormap as cm
all_shift=[c+np.array([10,0,0]) for c in all]
all_shift2=[c+np.array([20,0,0]) for c in all]
colors=np.zeros((len(all),3))
colors2=np.zeros((len(all),3))
for (i,a) in enumerate(all):
#print a[0]
colors[i]=cm.boys2rgb(allo[i])
colors2[i]=cm.orient2rgb(allo[i])
fvtk.add(r,fvtk.line(all_shift,colors,linewidth=1.))
fvtk.add(r,fvtk.line(all_shift2,colors2,linewidth=2.))
"""
.. figure:: visualize_cross1000000.png
:align: center
**The crossings of a region of interest shown with one color, or boy2rgb or standard orient2rgb colormap**.
.. include:: ../links_names.inc
#3,8,6 double crossing
dcross=fvtk.crossing(QA[3,8,6],IN[3,8,6],verts,1)
all=fvtk.crossing(QA,IN,verts,1)
fvtk.add(r,fvtk.line(all,fvtk.azure,linewidth=1.))
no_cross_shift=[c+np.array([3,8,4]) for c in no_cross]
cross_shift=[c+np.array([3,8,5]) for c in cross]
dcross_shift=[c+np.array([3,8,6]) for c in dcross]
fvtk.add(r,fvtk.line(no_cross_shift,fvtk.blue,linewidth=5.))
fvtk.add(r,fvtk.line(cross_shift,fvtk.indigo,linewidth=5.))
fvtk.add(r,fvtk.line(dcross_shift,fvtk.red,linewidth=5.))
from dipy.viz import colormap as cm
all_shift=[c+np.array([10,0,0]) for c in all]
all_shift2=[c+np.array([20,0,0]) for c in all]
colors=np.zeros((len(all),3))
colors2=np.zeros((len(all),3))
for (i,a) in enumerate(all):
#print a[0]
colors[i]=cm.boys2rgb(a[0])
colors2[i]=cm.orient2rgb(a[0])
fvtk.add(r,fvtk.line(all_shift,colors,linewidth=1.))
fvtk.add(r,fvtk.line(all_shift2,colors2,linewidth=2.))
fvtk.show(r)