ó
T™xTc           @   s¶   d  d l  m Z d  d l Z e j j d ƒ Z d  d l Td  d l Z d  d l	 m
 Z
 d  d l m Z d  d l m Z d d „ Z d	 d d
 „  ƒ  YZ d e j j e f d „  ƒ  YZ d S(   iÿÿÿÿ(   t   divisionNt   cctbx_masks_ext(   t   *(   t   flex(   t   van_der_waals_radii(   t   linalgc         C   s   t  |  | ƒ j S(   N(   t	   vdw_radiit
   atom_radii(   t   xray_structuret   table(    (    sB   /public2/ftp/pub/ccp4/6.5/ccp4-6.5/lib/py2/cctbx/masks/__init__.pyt   vdw_radii_from_xray_structure   s    R   c           B   s    e  Z d d  „ Z d d „ Z RS(   c         C   s  g  } | d  k r i  |  _ n | j ƒ  |  _ t j ƒ  |  _ x« t | j ƒ  ƒ D]— \ } } yT |  j j | j	 ƒ  ƒ } | d  k r® t
 j j | j	 ƒ  } | |  j | j	 ƒ  <n  Wn$ t k
 rÕ | j | j	 ƒ  ƒ qO X|  j j | ƒ qO Wt | ƒ d k rt d | ƒ ‚ n  d  S(   Ni    s)   Atoms with unknown van der Waals radius: (   t   NoneR	   t   copyR   t   doubleR   t	   enumeratet
   scattererst   gett   element_symbolR   t   vdwt   KeyErrort   appendt   lent   RuntimeError(   t   selfR   R	   t   unknownt   i_seqt	   scatterert   radius(    (    sB   /public2/ftp/pub/ccp4/6.5/ccp4-6.5/lib/py2/cctbx/masks/__init__.pyt   __init__   s     c         C   s‚   | d  k r t j } n  |  j j ƒ  } | j ƒ  x | D] } | d | Iq8 W| Jx# | D] } | d |  j | Iq[ W| Jd  S(   Ns   %5ss   %5.2f(   R   t   syst   stdoutR	   t   keyst   sort(   R   t   logt   symbolst   symbol(    (    sB   /public2/ftp/pub/ccp4/6.5/ccp4-6.5/lib/py2/cctbx/masks/__init__.pyt   show(   s     
N(   t   __name__t
   __module__R   R   R$   (    (    (    sB   /public2/ftp/pub/ccp4/6.5/ccp4-6.5/lib/py2/cctbx/masks/__init__.pyR      s   t   _c           B   s&   e  Z d  „  Z d „  Z d d „ Z RS(   c         C   s,   |  j  ƒ  } g  | D] } t j | ƒ ^ q S(   N(   t   inertia_tensors_fracR   t   eigensystem_real_symmetric(   R   t   inertia_tensorst   tensor(    (    sB   /public2/ftp/pub/ccp4/6.5/ccp4-6.5/lib/py2/cctbx/masks/__init__.pyt   eigensystems_frac6   s    c         C   s,   |  j  ƒ  } g  | D] } t j | ƒ ^ q S(   N(   t   inertia_tensors_cartR   R)   (   R   R*   R+   (    (    sB   /public2/ftp/pub/ccp4/6.5/ccp4-6.5/lib/py2/cctbx/masks/__init__.pyt   eigensystems_cart;   s    c         C   s  | d  k r t j } n  | d |  j ƒ  IJ|  j ƒ  } t d „  |  j ƒ  ƒ } |  j ƒ  } |  j ƒ  } |  j ƒ  } |  j ƒ  d k rŠ d  S| d I| d IJx]t	 | ƒ D]O} |  j
 ƒ  j ƒ  | | | } g  | | D] }	 d |	 ^ qÚ }
 | d | d I| d	 | | I| d
 | I| d d | |  j
 ƒ  j ƒ  I| d d j |
 ƒ Ixœ t	 d ƒ D]Ž } g  | | j ƒ  d | d | d !D] }	 d |	 ^ q’} | d k r½d } n
 d d } | | Id | d I| d d j | ƒ IJqhWq« Wd  S(   Ns   gridding: (%i,%i,%i)c         S   s   |  | S(   N(    (   t   xt   y(    (    sB   /public2/ftp/pub/ccp4/6.5/ccp4-6.5/lib/py2/cctbx/masks/__init__.pyt   <lambda>D   s    i    s6   Void #Grid points Vol/A^3 Vol/%  Centre of mass (frac)s     Eigenvectors (frac)s   %6.3fs   %4ii   s   %12is   %7.1fs   %5.1fid   s    (%s)t   ,i   t    t    i8   s   %i(   R   R   R   t   gridding_n_realt   n_voidst   reducet   grid_points_per_voidt   centres_of_mass_fracR,   t   ranget	   unit_cellt   volumet   joint   vectors(   R   R!   R6   t   n_grid_pointsR8   t   centres_of_masst   eigensystemst   it   void_volR/   t   formatted_sitet   jt   formatted_eigenvectort   sep(    (    sB   /public2/ftp/pub/ccp4/6.5/ccp4-6.5/lib/py2/cctbx/masks/__init__.pyt   show_summary@   s6      

!": 	
N(   R%   R&   R,   R.   R   RH   (    (    (    sB   /public2/ftp/pub/ccp4/6.5/ccp4-6.5/lib/py2/cctbx/masks/__init__.pyR'   4   s   		(    (   t
   __future__R    t   boost.pythont   boostt   pythont
   import_extt   extR   R   t   cctbx.array_familyR   t   cctbx.eltbxR   t   scitbxR   R   R
   R   t   injectort
   flood_fillR'   (    (    (    sB   /public2/ftp/pub/ccp4/6.5/ccp4-6.5/lib/py2/cctbx/masks/__init__.pyt   <module>   s   
$