scene1, stems, leaves, coords = seg.organs(scene)
"""
from scanalea.light import caribu, display, turtle
caribu_scene, res = caribu(scene, source=turtle(16))
display(scene, res)
"""
leaves_data = '/media/pradal/DONNEES/pradal/data/plantscan/segmented2/leaves_data.csv'
g = seg.create_mtg(stems, leaves,coords, leaves_data=leaves_data)
Viewer.display(Scene(g.property('geometry').values()))
from scanalea.maize import inferMaize
parameters=inferMaize(leaves_data)
rank = parameters['ranks']['rank'] # starting from 1
first_leaf_index = rank[0]
if first_leaf_index > 1:
s = '%d '%(first_leaf_index-1) + (' leaves ' if first_leaf_index>2 else 'leaf ') + 'missing at the base'
print s
stage = parameters['stage']
ligulated_leaves = int(np.round(stage['col'])[0]-first_leaf_index)+1
total_leaves = int(np.round(stage['tip'])[0]-first_leaf_index)+1
nb_leaves = g.nb_vertices(scale=3)
print 'Segmented leaves: %d but Predicted leaves: %d'%(nb_leaves, total_leaves)
metamer_ids = sorted(g.vertices(scale=3))
def test_inferMaize():
return inferMaize('./leaves_data.csv')