mmtbx.den
index
/net/chevy/raid1/nat/src/cctbx_project/mmtbx/den/__init__.py

 
Package Contents
       
plot_weights
refinement

 
Classes
       
__builtin__.object
den_restraints

 
class den_restraints(__builtin__.object)
     Methods defined here:
__init__(self, pdb_hierarchy, params, pdb_hierarchy_ref=None, log=None, den_proxies=None)
build_den_proxies(self, pdb_hierarchy)
build_den_restraints(self)
check_den_pair_consistency(self)
count_atoms_per_chain(self, pdb_hierarchy)
dump_den_network(self)
find_atom_pairs(self, pdb_hierarchy, resid_hash)
get_current_eq_distances(self)
get_den_atom_pairs(self)
get_optimization_grid(self)
get_selection_strings(self)
import_eq_distances(self, eq_distances)
load_den_network(self)
output_kinemage(self, sites_cart)
remove_non_matching_pairs(self)
# remove any pairs of reference model atoms that do not
# have matching atom pairs in the working model
select(self, n_seq, selection)
select_random_den_restraints(self)
show_den_summary(self, sites_cart)
target_and_gradients(self, sites_cart, gradient_array)
update_eq_distances(self, sites_cart)

Data descriptors defined here:
__dict__
dictionary for instance variables (if defined)
__weakref__
list of weak references to the object (if defined)

 
Functions
       
distance_squared(a, b)

 
Data
        den_params = <libtbx.phil.scope object>
den_params_development = <libtbx.phil.scope object>
division = _Feature((2, 2, 0, 'alpha', 2), (3, 0, 0, 'alpha', 0), 8192)