run_msms (
        xyzr,
        probe_radius=None,
        vertex_density=None,
        all_components=None,
        )

read_msms_component_output ( prefix,  component )

read_binary_array (
        f,
        d2,
        type,
        )

triangle_data ( srf )

write_binary_array ( a,  f )

read_msms_output ( prefix,  area_path )

doubles_from_pointer ( swig_double_p,  n )

msms_geometry (
        atoms,
        probe_radius=None,
        vertex_density=None,
        all_components=None,
        separate_process=None,
        )

run_mscalc (
        xyzr,
        probe_radius=None,
        vertex_density=None,
        all_components=None,
        fallback_to_single_component=None,
        )

empty_surface ()

combine_triangle_data ( tdata )

Combine triangulation data from all surface components.

vfloat elements (x,y,z,nx,ny,nz,sesA,sasA) vint elements (type, closestAtomindex, buried) tri elements (i, j, k, type, SESF_num)

parse_mscalc_output ( msouts )

run_shell_command ( args,  input )

read_atom_areas ( area_path )

xyzr_surface_geometry (
        xyzr,
        probe_radius=None,
        vertex_density=None,
        all_components=None,
        separate_process=None,
        )

atom_areas ( srf )

Get analytic per atom areas summed over all surface components and also total areas for each surface component. MSMS library doesn't wrap array of per-atom SES/SAS areas, just gives C pointer so there is some ugly use of ctypes.

remove_msms_output ( prefix,  area_path )