mmtbx.grow_density
index
/net/chevy/raid1/nat/src/cctbx_project/mmtbx/grow_density.py

 
Modules
       
cctbx.adptbx
iotbx.crystal_symmetry_from_any
cctbx.array_family.flex
iotbx
mmtbx.maps
math
mmtbx
os
iotbx.pdb
iotbx.reflection_file_reader
iotbx.reflection_file_utils
scitbx
mmtbx.utils
cctbx.xray

 
Functions
       
StringIO(...)
StringIO([s]) -- Return a StringIO-like stream for reading or writing
cmd_run(args, command_name)
create_da_xray_structures(xray_structure, params)
filter_da(fmodels, selection, da_sel_refinable, params)
frange(start, end=None, inc=None)
grow_density(f_obs, r_free_flags, xray_structure, xray_structure_da, params)
make_grid(center, radius, gap, occupancy, b_factor, atom_name, scattering_type, resname)
master_params()
pdb_atoms_as_xray_structure(pdb_atoms, crystal_symmetry)
refine_adp(fmodels, selection, da_sel_refinable, params, macro_cycle)
refine_da(fmodel, selection, params, da_sel_refinable)
refine_occupancies(fmodels, selection, da_sel_refinable, params, macro_cycle)
refine_sites(fmodels, selection, da_sel_refinable, params, macro_cycle)
refinery(fmodels, number_of_iterations, iselection, parameter)
reflection_file_server(crystal_symmetry, reflection_files)
reset_adps(fmodels, selection, params)
reset_occupancies(fmodels, selection, params)
run(processed_args, params)
show_refinement_update(fmodels, selection, da_sel_refinable, prefix)

 
Data
        division = _Feature((2, 2, 0, 'alpha', 2), (3, 0, 0, 'alpha', 0), 8192)
master_params_str = 'pdb_file_name = None\n .type = str\n .multiple =...able distance between DA and any model atom.\n }\n'