ó
šxTc           @   sÍ  d  d' f f Z  d  d d( f f f f Z d  d d d) f d d* f f f f f f Z d  d d d d+ f d d, f f f f f f f f Z d  d d d	 d
 d- f f f f f d d d. f f f f f f f f Z d/ Z d  d d d	 d0 f f f d d d1 f f f f f f f f Z d  d d d2 f f f d d3 f f f f Z d  d d d d d4 f f f f f f f f f f Z d  d d d5 f d d6 f f f f f f Z	 d  d d d d7 f f f f f f f f Z
 d  d d d8 f d d9 f f f f f f Z d  d d d: f f f f f f Z d  d d d d; f d d< f f f f f f f f Z d  d d d d
 d d= f d d> f f f f f f f f f f f f Z d  d d? f f f f Z d  d d@ f d dA f f f f Z d  d dB f d dC f f f f Z d  d d d d d dD f f f f f d d dE f f f f f d d dF f f f f f f f f Z d  d d d	 d
 d dG f f f f f f f d d dH f f f f f f f f Z d  e f d! „  ƒ  YZ d" e f d# „  ƒ  YZ d$ e f d% „  ƒ  YZ d& S(I   s    CB s    SG s    CG s    OD1s    OD2s    CD s    OE1s    OE2s    CD1s    CE1s    CZ s    CD2s    CE2s    ND1s    NE2s    CG1s    CG2s    CE s    NZ s    SD s    ND2s    NE s    NH1s    NH2s    OG s    OG1s    CZ2s    CH2s    CE3s    CZ3s    NE1s    OH t   SidechainAtomc           B   s&   e  Z d  Z d „  Z e d „  ƒ Z RS(   s-   
    Calculates atom names from topology
    c         C   s   |  j  d | ƒ |  _ d  S(   Nt   subtree(   t   flattent   names(   t   selft   topology(    (    sE   /public2/ftp/pub/ccp4/6.5/ccp4-6.5/lib/py2/phaser/residue_topology.pyt   __init__½   s    c         C   s@   g  } x3 | D]+ } | j  | d g |  j | d ƒ ƒ q W| S(   Ni    i   (   t   extendR   (   t   clsR   t   atomst   entry(    (    sE   /public2/ftp/pub/ccp4/6.5/ccp4-6.5/lib/py2/phaser/residue_topology.pyR   Â   s    
(   t   __name__t
   __module__t   __doc__R   t   classmethodR   (    (    (    sE   /public2/ftp/pub/ccp4/6.5/ccp4-6.5/lib/py2/phaser/residue_topology.pyR    ¸   s   	t   MainchainDistancec           B   s5   e  Z d  Z d „  Z e d „  ƒ Z e d „  ƒ Z RS(   s;   
    Calculates distances from mainchain from topology
    c      
   C   sD   t  g  | D]* } | t |  j d | d | ƒ ƒ f ^ q
 ƒ |  _ d  S(   Nt   treet   item(   t   dictt   lent   get_path_fromt	   from_atom(   R   R   R   t   atom(    (    sE   /public2/ftp/pub/ccp4/6.5/ccp4-6.5/lib/py2/phaser/residue_topology.pyR   Ô   s    c         C   sp   t  g  | D] } | d | k ^ q
 ƒ r0 | g Sx9 | D]1 } |  j | d | ƒ } | r7 | d g | Sq7 Wg  S(   Ni    iÿÿÿÿ(   t   anyR   (   R   R   R   R
   t
   trial_path(    (    sE   /public2/ftp/pub/ccp4/6.5/ccp4-6.5/lib/py2/phaser/residue_topology.pyR   á   s    )c         C   s%   t  d | ƒ } |  d | d | j ƒ S(   NR   R   (   R    R   (   R   R   t   sca(    (    sE   /public2/ftp/pub/ccp4/6.5/ccp4-6.5/lib/py2/phaser/residue_topology.pyt   Allð   s    (   R   R   R   R   R   R   R   (    (    (    sE   /public2/ftp/pub/ccp4/6.5/ccp4-6.5/lib/py2/phaser/residue_topology.pyR   Ï   s   	t   SidechainCorrespondencec           B   s&   e  Z d  Z d „  Z e d „  ƒ Z RS(   sG   
    Creates a mapping from old residue atoms to new residue atoms
    c         C   s%   t  |  j d | d | ƒ ƒ |  _ d  S(   Nt   sourcet   target(   R   t   create_mappingt   mapping(   R   R   R   (    (    sE   /public2/ftp/pub/ccp4/6.5/ccp4-6.5/lib/py2/phaser/residue_topology.pyR   ü   s    c         C   sl   g  } x_ t  | | ƒ D]N \ } } | j | d | d f ƒ | j |  j d | d d | d ƒ ƒ q W| S(   Ni    R   i   R   (   t   zipt   appendR   R   (   R   R   R   R   t   st   t(    (    sE   /public2/ftp/pub/ccp4/6.5/ccp4-6.5/lib/py2/phaser/residue_topology.pyR     s
    +(   R   R   R   R   R   R   (    (    (    sE   /public2/ftp/pub/ccp4/6.5/ccp4-6.5/lib/py2/phaser/residue_topology.pyR   ÷   s   	N(    (    (    (    (    (    (    (    (    (    (    (    (    (    (    (    (    (    (    (    (    (    (    (    (    (    (    (    (    (    (    (    (    (    (   t   ALAt   CYSt   ASPt   GLUt   PHEt   GLYt   HISt   ILEt   LYSt   LEUt   METt   ASNt   PROt   GLNt   ARGt   SERt   THRt   VALt   TRPt   TYRt   objectR    R   R   (    (    (    sE   /public2/ftp/pub/ccp4/6.5/ccp4-6.5/lib/py2/phaser/residue_topology.pyt   <module>   s´   		!!!'	!		!	-		!!(