7 from __future__
import print_function
21 for x
in range(0, 3)])
25 m, [(ps[i[0]], ps[i[1]])
for i
in [(0, 1), (1, 2)]])
26 print([(m.get_particle_name(p[0]), m.get_particle_name(p[1]))
27 for p
in lpc.get_contents()])
29 r.set_maximum_score(.1)
36 pst.set_particle_states(m.get_particle(p), space)
38 m.set_log_level(IMP.SILENT)
45 print(
"Unable to display graph using 'dot'")
47 rc.add_restraints([r])
54 root = RMF.HDF5.create_file(name)
59 def get_assignments(vertex):
60 on = mt.get_out_neighbors(vertex)
61 ss = mt.get_vertex_name(vertex)
62 print(
"computing assignments for", ss)
64 dataset = root.add_child_index_data_set_2d(ssn)
65 dataset.set_size([0, len(ss)])
67 dataset, ss, pst.get_particles(), ssn)
73 (ss0, a0) = get_assignments(on[0])
74 (ss1, a1) = get_assignments(on[1])
76 print(ss, mine.get_number_of_assignments())
81 dataset, ss, pst.get_particles(), ssn))
86 all = get_assignments(mt.get_vertices()[-1])
87 all[1].set_was_used(
True)
89 print(
'try: h5dump', name)
Strings setup_from_argv(const Strings &argv, std::string description, std::string positional_description, int num_positional)
Various classes to hold sets of particles.
Filter a configuration of the subset using the Model thresholds.
Store the assignments in an HDF5DataSet.
static XYZ setup_particle(Model *m, ParticleIndex pi)
Class for storing model, its restraints, constraints, and particles.
Do not allow two particles to be in the same state.
Store a list of ParticleIndexPairs.
ParticleIndexPairs get_indexes(const ParticlePairsTemp &ps)
Get the indexes from a list of particle pairs.
void load_leaf_assignments(const Subset &subset, AssignmentsTable *at, AssignmentContainer *ac)
Fill in assignments for a leaf.
void load_merged_assignments(const Subset &first_subset, AssignmentContainer *first, const Subset &second_subset, AssignmentContainer *second, const SubsetFilterTablesTemp &filters, AssignmentContainer *ret)
Fill in assignments for an internal node.
General purpose algebraic and geometric methods that are expected to be used by a wide variety of IMP...
MergeTree get_merge_tree(const SubsetGraph &junction_tree)
Class to handle individual particles of a Model object.
std::string show_graphviz(Graph g)
Store the assignments in an HDF5DataSet.
Applies a PairScore to each Pair in a list.
Divide-and-conquer inferential optimization in discrete space.
std::string create_temporary_file_name(std::string prefix="imp_temp", std::string suffix="")
Create a temporary file.