Run domino storing the intermediate and final results in an HDF5 database. This has the advantage that if you interrupt the run at any point, you have a list of everything computed so far and so can get a better idea of what is going on.
7 from __future__
import print_function
21 for x
in range(0, 3)])
25 [(ps[i[0]], ps[i[1]])
for i
in [(0, 1), (1, 2)]])
26 print([(p[0].get_name(), p[1].get_name())
for p
in lpc.get_particle_pairs()])
28 r.set_maximum_score(.1)
35 pst.set_particle_states(m.get_particle(p), space)
37 m.set_log_level(IMP.SILENT)
44 print(
"Unable to display graph using 'dot'")
46 rc.add_restraints([r])
53 root = RMF.HDF5.create_file(name)
58 def get_assignments(vertex):
59 on = mt.get_out_neighbors(vertex)
60 ss = mt.get_vertex_name(vertex)
61 print(
"computing assignments for", ss)
63 dataset = root.add_child_index_data_set_2d(ssn)
64 dataset.set_size([0, len(ss)])
66 dataset, ss, pst.get_particles(), ssn)
72 (ss0, a0) = get_assignments(on[0])
73 (ss1, a1) = get_assignments(on[1])
75 print(ss, mine.get_number_of_assignments())
80 dataset, ss, pst.get_particles(), ssn))
84 all = get_assignments(mt.get_vertices()[-1])
85 all[1].set_was_used(
True)
87 print(
'try: h5dump', name)