#/usr/bin/env python


from    dionysus    import Rips, PairwiseDistances, StaticPersistence, Filtration, points_file, \
                           ExplicitDistances, data_dim_cmp
from    sys         import argv, exit
import  time


if len(argv) < 4:
    print "Usage: %s POINTS SKELETON MAX" % argv[0]
    exit()

filename = argv[1]
skeleton = int(argv[2])
max = float(argv[3])

points = [p for p in points_file(filename)]
distances = PairwiseDistances(points)
#distances = ExplicitDistances(distances)           # speeds up generation of the Rips complex at the expense of memory usage
rips = Rips(distances)
print time.asctime(), "Rips initialized"

simplices = []
rips.generate(skeleton, max, simplices.append)
print time.asctime(), "Generated complex: %d simplices" % len(simplices)

# While this step is unnecessary (Filtration below can be passed rips.cmp), 
# it greatly speeds up the running times
for s in simplices: s.data = rips.eval(s)
print time.asctime(), simplices[0], '...', simplices[-1]

f = Filtration(simplices, data_dim_cmp)             # could be rips.cmp if s.data for s in simplices is not set
print time.asctime(), "Set up filtration"

p = StaticPersistence(f)
print time.asctime(), "Initialized StaticPersistence"

p.pair_simplices()
print time.asctime(), "Simplices paired"