def main():
""" This is the main function of the code it is the starting point of
a simulation. """
# Load input parameters from the input file and add the, in allcaps
# to the global namespace.
global EXTERNAL_FIELD_VECTOR, ELECTRODE
parameters = load_input(sys.argv[1], param_descriptors)
globals().update(dict((key.upper(), item)
for key, item in parameters.iteritems()))
if RANDOM_SEED >= 0:
seed(RANDOM_SEED)
EXTERNAL_FIELD_VECTOR = array([0.0, 0.0, EXTERNAL_FIELD])
ELECTRODE = init_electrode()
# init a tree from scratch
tr, r0, q0 = init_from_scratch(INITIAL_NODES)
dt = TIME_STEP
t = r_[0:END_TIME:dt]
r, q = r0, q0
dfile = DataFile(OUT_FILE, parameters=parameters)
branched = False
for i, it in enumerate(t):
# with ContextTimer("plotting"):
# plot_projections(r, q)
# pylab.savefig('tree_%.3d.png' % i)
# print 't = %g\ttree_%.3d.png' % (it, i)
print "%d/%d t = %g" % (i, len(t), it)
branch_prob = BRANCHING_PROBABILITY
if SINGLE_BRANCHING_TIME > 0:
if it > SINGLE_BRANCHING_TIME:
if not branched:
branch_prob = inf
branched = True
if SINGLE_BRANCHING_Z != 0 and not branched:
zterm = r[tr.terminals()[0], Z]
if zterm < SINGLE_BRANCHING_Z:
if not branched:
branch_prob = inf
branched = True
r, q = adapt_step(tr, r, q, dt, p=branch_prob)
with ContextTimer("saving %d" % i):
phi = solve_phi(r, q)
dfile.add_step(it, tr, r, q, phi,
error=error, error_dq=error_dq)
if END_WITH_RECONNECTION and tr.reconnects(r):
print "Finishing due to a reconnection."
break
def main():
""" This is the main function of the code it is the starting point of
a simulation. """
# Load input parameters from the input file and add the, in allcaps
# to the global namespace.
global EXTERNAL_FIELD_VECTOR, ELECTRODE
parameters = load_input(sys.argv[1], param_descriptors)
globals().update(
dict((key.upper(), item) for key, item in parameters.iteritems()))
if RANDOM_SEED >= 0:
seed(RANDOM_SEED)
EXTERNAL_FIELD_VECTOR = array([0.0, 0.0, EXTERNAL_FIELD])
ELECTRODE = init_electrode()
# init a tree from scratch
tr, r0, q0 = init_from_scratch(INITIAL_NODES)
dt = TIME_STEP
t = r_[0:END_TIME:dt]
r, q = r0, q0
dfile = DataFile(OUT_FILE, parameters=parameters)
branched = False
for i, it in enumerate(t):
# with ContextTimer("plotting"):
# plot_projections(r, q)
# pylab.savefig('tree_%.3d.png' % i)
# print 't = %g\ttree_%.3d.png' % (it, i)
print "%d/%d t = %g" % (i, len(t), it)
branch_prob = BRANCHING_PROBABILITY
if SINGLE_BRANCHING_TIME > 0:
if it > SINGLE_BRANCHING_TIME:
if not branched:
branch_prob = inf
branched = True
if SINGLE_BRANCHING_Z != 0 and not branched:
zterm = r[tr.terminals()[0], Z]
if zterm < SINGLE_BRANCHING_Z:
if not branched:
branch_prob = inf
branched = True
r, q = adapt_step(tr, r, q, dt, p=branch_prob)
with ContextTimer("saving %d" % i):
phi = solve_phi(r, q)
dfile.add_step(it, tr, r, q, phi, error=error, error_dq=error_dq)
if END_WITH_RECONNECTION and tr.reconnects(r):
print "Finishing due to a reconnection."
break
