ó
A™xTc           @   sô   d  d l  m Z d  d l Z d  d l m Z d  d l m Z d  d l m Z d  d l	 Z	 d  d l
 Z e j j d ƒ Z d  d l Ti d d	 6d
 d 6d d 6Z d d d „  ƒ  YZ d e f d „  ƒ  YZ d e f d „  ƒ  YZ d e f d „  ƒ  YZ d S(   iÿÿÿÿ(   t   divisionN(   t   eltbx(   t   flex(   t   plural_st   cctbx_statistics_ext(   t   *i   t   Ci   t   Ni   t   Ot   emptyc           B   s   e  Z RS(    (   t   __name__t
   __module__(    (    (    s>   /public2/ftp/pub/ccp4/6.5/ccp4-6.5/lib/py2/cctbx/statistics.pyR	      s    t   wilson_plotc           B   s   e  Z e d  „ Z d „  Z RS(   c         C   s‚  | j  ƒ  s t ‚ | j ƒ  |  _ | j | j ƒ  d k ƒ } | j | ƒ | j d t d t ƒ j d d !|  _ |  j j	 d  ƒ } | d k r/d t | ƒ } |  j d  k	 rÅ | d t |  j ƒ 7} n  | d t |  j ƒ 7} | d	 | j ƒ  j ƒ  7} | d
 | j ƒ  j ƒ  | j ƒ  j ƒ  7} t | ƒ ‚ n  t j |  j ƒ |  _ | j ƒ  } | j | ƒ t j | j d t d t ƒ j d d !ƒ |  _ i  } x0 | j ƒ  D]" }	 t j j |	 ƒ j ƒ  | |	 <qžWt j ƒ  |  _ xi |  j D]^ } d }
 x? | j ƒ  D]1 \ }	 } | |	 j | ƒ } |
 | | | 7}
 qöW|  j j |
 ƒ qÝW|  j | j  ƒ  j! ƒ  | j  ƒ  j" ƒ  9_ |  j |  _# t j$ |  j |  j ƒ |  _% t j& |  j# |  j% ƒ } | j' ƒ  s¼t ‚ | j( ƒ  |  _) | j* ƒ  |  _+ t, j- |  j) ƒ |  _. t, j/ |  j. ƒ |  _0 |  j+ d |  _1 t j2 |  j# |  j% ƒ j3 ƒ  |  _4 | r~| j5 | |  ƒ } | j6 ƒ  |  _7 | j8 ƒ  |  _8 | j9 ƒ  |  _9 n  d  S(   Ni    t   use_binningt   use_multiplicitiesi   iÿÿÿÿs"   wilson_plot error: %d empty bin%s:s	   
  Info: s   
  Number of bins: %ds   
  Number of f_obs > 0: %ds   
  Number of f_obs <= 0: %di   (:   t   is_real_arrayt   AssertionErrort   infot   selectt   datat   use_binning_oft   mean_sqt   Truet   mean_fobs_sqt   countt   NoneR   t   strt   lent   indicest   sizet   RuntimeErrorR   t   doublet   sin_theta_over_lambda_sqt   use_binner_oft   meant   mean_stol_sqt   keysR   t   xray_scatteringt   wk1995t   fetcht   expected_f_sqt   itemst
   at_stol_sqt   appendt   space_groupt   order_zt   n_ltrt   xt   logt   yt   linear_regressiont   is_well_definedt   y_interceptt   fit_y_interceptt   slopet	   fit_slopet   matht   expt   wilson_intensity_scale_factort   sqrtt   wilson_kt   wilson_bt   linear_correlationt   coefficientt   fit_correlationt   normalised_amplitudest   arrayt   normalised_f_obst   mean_e_sq_minus_1t   percent_e_sq_gt_2(   t   selft   f_obst   asu_contentst   e_statisticst   f_obs_selectedt   n_nonet   error_messaget   stol_sqt	   gaussianst   chemical_typet	   sum_fj_sqt   n_atomst   f0t   fitt
   normalised(    (    s>   /public2/ftp/pub/ccp4/6.5/ccp4-6.5/lib/py2/cctbx/statistics.pyt   __init__   sh    	$	!c         C   s±   t  ƒ  } d | _ |  j d k r@ | j d t |  j ƒ 7_ n  |  j | _ |  j | _ d | _ d | _ |  j | _ |  j	 | _	 |  j
 | _
 d |  j |  j |  j
 f | _ | S(   Ns   Wilson Ploti    s   : s   (sin(theta)/lambda)^2s   ln(<Fobs^2>/<Fcalc^2>)s   k=%f, b=%f, corr=%f(   R	   t   titleR   R   R/   R1   t   xLegendt   yLegendR5   R7   R@   R<   R=   t   overlayLegend(   RF   t   r(    (    s>   /public2/ftp/pub/ccp4/6.5/ccp4-6.5/lib/py2/cctbx/statistics.pyt   xy_plot_infoO   s    				(   R
   R   t   FalseRU   R[   (    (    (    s>   /public2/ftp/pub/ccp4/6.5/ccp4-6.5/lib/py2/cctbx/statistics.pyR      s   <t!   cumulative_intensity_distributionc           B   s    e  Z d d d  „ Z d „  Z RS(   c         C   s`  | | g j  d  ƒ d k s! t ‚ | d  k	 rp | j ƒ  d  k	 sE t ‚ | j ƒ  |  _ | j ƒ  } | j | ƒ n | j ƒ  d  k	 sˆ t ‚ | j d t ƒ } t	 j
 | j d | j ƒ  j ƒ  d !ƒ } t	 j
 g  t d | j ƒ  j ƒ  d ƒ D] } | j j | ƒ d ^ qé ƒ } t | j ƒ  | j ƒ  j ƒ  | | | j ƒ  ƒ } | j ƒ  |  _ | j ƒ  |  _ d  S(   Ni   R   (   R   R   R   t   binnerR   t	   f_as_f_sqR!   R"   R   R   R   R   t   n_bins_usedt   ranget   bin_d_ranget   cumulative_intensity_coret
   d_spacingsR   R/   R1   (   RF   RG   t   f_obs_sqt   mean_f_obs_sqt	   mean_datat   it	   bin_d_maxt   result(    (    s>   /public2/ftp/pub/ccp4/6.5/ccp4-6.5/lib/py2/cctbx/statistics.pyRU   b   s$    !)	Bc         C   sn   t  ƒ  } d | _ |  j d k r@ | j d t |  j ƒ 7_ n  |  j | _ |  j | _ d | _ d | _ | S(   Ns!   Cumulative Intensity Distributioni    s   : t   zs   N(z)(   R	   RV   R   R   R/   R1   RW   RX   (   RF   RZ   (    (    s>   /public2/ftp/pub/ccp4/6.5/ccp4-6.5/lib/py2/cctbx/statistics.pyR[   w   s    				N(   R
   R   R   RU   R[   (    (    (    s>   /public2/ftp/pub/ccp4/6.5/ccp4-6.5/lib/py2/cctbx/statistics.pyR]   _   s   t!   sys_absent_intensity_distributionc           B   s   e  Z d  „  Z d „  Z RS(   c         C   sª   | j  ƒ  |  _  | j ƒ  } | j ƒ  d k rK d  |  _ d  |  _ d  |  _ n[ | j ƒ  d  k	 sc t ‚ | j	 ƒ  } | | j ƒ  j
 ƒ  |  _ | j
 ƒ  |  _ | j ƒ  |  _ d  S(   Ni    (   R   t   select_sys_absentR   R   R/   R1   R   t   sigmasR   t   as_intensity_arrayR   (   RF   RG   t   sys_absencest   intensities(    (    s>   /public2/ftp/pub/ccp4/6.5/ccp4-6.5/lib/py2/cctbx/statistics.pyRU   …   s    		c         C   sz   t  ƒ  } d | _ |  j d k r@ | j d t |  j ƒ 7_ n  |  j | _ |  j | _ |  j | _ d | _ d | _ | S(   Ns*   Systematic Absences Intensity Distributioni    s   : s
   I/sigma(I)t	   Intensity(	   R	   RV   R   R   R/   R1   R   RW   RX   (   RF   RZ   (    (    s>   /public2/ftp/pub/ccp4/6.5/ccp4-6.5/lib/py2/cctbx/statistics.pyR[   “   s    				(   R
   R   RU   R[   (    (    (    s>   /public2/ftp/pub/ccp4/6.5/ccp4-6.5/lib/py2/cctbx/statistics.pyRl   ‚   s   	(    (   t
   __future__R    t   cctbx.eltbx.xray_scatteringt   cctbxR   t   cctbx.array_familyR   t   libtbx.utilsR   R8   t   boost.pythont   boostt   pythont
   import_extt   extR   t#   mean_number_of_atoms_per_amino_acidR	   t   objectR   R]   Rl   (    (    (    s>   /public2/ftp/pub/ccp4/6.5/ccp4-6.5/lib/py2/cctbx/statistics.pyt   <module>   s   
N#