|
molecule_copies
|
molecule_copies (
molecule,
matrices,
associate_molecule_with_identity_matrix=None,
)
|
|
show_multiscale_model_dialog
|
show_multiscale_model_dialog ()
|
|
fully_selected_pieces
|
fully_selected_pieces ( plist )
A fully selected piece is one that is selected or has at least one child
and all children are fully selected.
|
|
subtract_lists
|
subtract_lists ( list1, list2 )
|
|
containing_chain_pieces
|
containing_chain_pieces ( surface_pieces, residues=None )
|
|
numbered_xforms
|
numbered_xforms ( matrices )
|
|
atomAndBondSurfacePieces
|
atomAndBondSurfacePieces (
self,
atoms,
bonds,
)
Added as a method to SurfaceModel to allow Chimera Actions menu to work
on selected multiscale surfaces.
|
|
position_atoms
|
position_atoms (
atoms,
xyz_array,
xform,
)
Set position of atoms.
|
|
surfacePieceAtomsAndBonds
|
surfacePieceAtomsAndBonds (
self,
plist,
create,
)
Added as a method to SurfaceModel to allow Chimera Actions menu to work
on selected multiscale surfaces.
|
|
identity_xform_index
|
identity_xform_index (
xforms,
default_index=None,
angle_tolerance=None,
translation_tolerance=None,
)
|
|
find_pieces
|
find_pieces (
pieces,
piece_type,
already_checked=None,
)
|
|
multiscale_model_dialog
|
multiscale_model_dialog ( create=None )
|
|
multimer_chain_group
|
multimer_chain_group (
multimer_name,
group_name,
xforms,
lan_molecules,
chain_ids,
chain_colors,
surfacer,
)
|
|
make_chain_groups
|
make_chain_groups (
name_prefix,
chain_names,
mcopies,
color=None,
chain_colors=None,
)
|
|
modeled_molecules
|
modeled_molecules ( pieces, mtable=None )
|
|
multimeric_molecule_pieces
|
multimeric_molecule_pieces (
molecule,
surfacer,
xforms,
associate_molecule_with_identity_matrix=None,
)
|
|
float_variable_value
|
float_variable_value ( v, default=None )
|
|
chain_pieces
|
chain_pieces (
lan_chains,
chain_colors,
xform,
surfacer,
)
|
|
make_group
|
make_group ( name, plist )
|
|
integer_variable_value
|
integer_variable_value ( v, default=None )
|
|
make_lan_molecules
|
make_lan_molecules (
molecule,
n,
associate=None,
)
The associate argument gives the index of the LAN_Molecule in the returned
list which has the given molecule associated with it.
|
|
color_surfaces_to_match_atoms
|
color_surfaces_to_match_atoms ()
|
|
transformed_points
|
transformed_points ( varray, tf )
varray is an N by 3 array of xyz positions
to be transformed using a 3 by 4 transform matrix.
|
|
chimera_color
|
chimera_color ( rgba )
|
|
find_fully_selected_pieces
|
find_fully_selected_pieces ( p, fstable )
|
|
random_colors
|
random_colors ( n, seed=None )
|
|
parent_pieces
|
parent_pieces ( plist )
|
|
make_chain_group
|
make_chain_group (
name,
chain_names,
mcopies,
chain_colors,
)
|
|
show_biological_unit
|
show_biological_unit ()
|
|