def constant_rate(sawsim_runner, num_domains=1, unfolding_rate=1,
- spring_constant=1, velocity=1, N=400):
- loading_rate = spring_constant * velocity
+ spring_constant=1, velocity=1, N=100):
+ loading_rate = float(spring_constant * velocity)
tau = loading_rate / unfolding_rate
w = 0.1 * tau # calculate bin width (in force)
A = w*num_domains*N / tau
theory.bin_centers, [tau])
theory.analyze()
+ max_time_step = tau/10.0
+ max_force_step = loading_rate * max_time_step
param_string = (
- '-v %(velocity)s -s cantilever,hooke,%(spring_constant)s -N1 '
- '-s folded,null -N%(num_domains)s -s unfolded,null '
- '-k folded,unfolded,const,%(unfolding_rate)s -q folded '
+ '-d %(max_time_step)g -F %(max_force_step)g -v %(velocity)g '
+ '-s cantilever,hooke,%(spring_constant)g -N1 '
+ '-s folded,null -N%(num_domains)d -s unfolded,null '
+ '-k folded,unfolded,const,%(unfolding_rate)g -q folded '
) % locals()
sim = sawsim_histogram(sawsim_runner, param_string, N=N,
bin_edges=theory.bin_edges)
def test(num_domains=[1,50], unfolding_rate=[1,2], spring_constant=[1,2],
- velocity=[1,2], threshold=0.3):
+ velocity=[1,2], threshold=0.2):
m = get_manager()()
sr = SawsimRunner(manager=m)
try: