ó
I)c`c           @   sÖ   d  d l  Z d  d l j Z d  d l Z d  d l m Z m	 Z	 d  d l
 m Z d  d l j Z d  d l m Z d d d d „ Z d d „ Z d d „ Z d d e d d	 d
 „ Z e d d d „ Z d e d d „ Z d S(   iÿÿÿÿN(   t
   csr_matrixt
   coo_matrix(   t   KDTree(   t   cosinet	   euclideanc         C   s¢   |  j  \ } } | d  k r$ |  } n  | d  k	 rO t |  | d | d | ƒ} | S| d k rv t j j j |  | ƒ } n( t j j j |  | ƒ } t j	 | ƒ } | S(   Nt   distance_metrict   num_topR   (
   t   shapet   Nonet   kd_alignt   sklearnt   metricst   pairwiset   cosine_similarityt   euclidean_distancest   npt   exp(   t   embedt   embed2t   sim_measureR   t   n_nodest   dimt   kd_simt   similarity_matrix(    (    sA   /Users/mheimann/Documents/GitHub/src_official/REGAL/alignments.pyt   get_embedding_similarities	   s    	c         C   sQ   | d  k r& t |  j d d ƒ } n  |  j d } |  |  } |  | } | | f S(   Ni    i   i   (   R   t   intR   (   t   combined_embedt   graph_split_idxR   t   embed1R   (    (    sA   /Users/mheimann/Documents/GitHub/src_official/REGAL/alignments.pyt   get_embeddings   s    

c         C   s‹   | d  k r" t j t j |  ƒ ƒ Sg  | j ƒ  D] } t | ƒ ^ q/ } g  | j ƒ  D] } t | | ƒ ^ qT } t j |  | | f ƒ Sd  S(   N(   R   R   t   sumt   diagonalt   keysR   (   t   alignment_matrixt   true_alignmentst   node_g1t   nodes_g1t   nodes_g2(    (    sA   /Users/mheimann/Documents/GitHub/src_official/REGAL/alignments.pyt   score*   s
    %)R   c   
      C   sC   t  |  | d | ƒ} t | | | ƒ } t | d | d | ƒ}	 |	 S(   NR   t   topkR"   (   R   t   get_estimated_alignment_matrixt   score_alignment_matrix(
   R   R   R'   t   similarity_thresholdt	   normalizeR"   t   simR   R!   R&   (    (    sA   /Users/mheimann/Documents/GitHub/src_official/REGAL/alignments.pyt   score_embeddings_matrices3   s    i2   c         C   s  t  | d | ƒ} t j g  ƒ } t j g  ƒ } t j g  ƒ } | j |  d | ƒ\ }	 }
 d GHt j g  ƒ } x= t |  j d ƒ D]( } t j | t j | ƒ | f ƒ } q‚ W|
 j ƒ  } t j	 |	 ƒ j ƒ  } t
 | | | f f d |  j d | j d f ƒ} | j ƒ  S(   Nt   metrict   ks   queried alignmentsi    R   (   R   R   t   arrayt   queryt   rangeR   t   concatenatet   onest   flattenR   R   t   tocsr(   t   emb1t   emb2R+   R   R   t   kd_treet   rowt   colt   datat   distt   indt   it   sparse_align_matrix(    (    sA   /Users/mheimann/Documents/GitHub/src_official/REGAL/alignments.pyR	   9   s    &2c         C   s›  |  j  d } g  } | d  k rs |  j d d ƒ } d | | d k <|  | d  d  … t j f }  t |  d | ƒ} nd } t j |  ƒ sš t j |  ƒ } n  xŞ t	 | ƒ D]Ğ }	 |	 }
 | d  k	 rÒ t
 | |	 ƒ }
 n  t j |  ƒ rt j |  |	 ƒ \ } } } | | j ƒ  } n
 | |	 } |
 | | k r§ | r]| d | t j | |	 |
 k ƒ d 7} n
 | d 7} | j |	 ƒ q§ q§ W| t | ƒ :} | t | ƒ f S(   Ni    t   axisi   gíµ ÷Æ°>R"   g      ğ?(   R   R   R   R   t   newaxisR&   t   spt   issparset   argsortR2   R   t   findt   argwheret   appendt   floatt   set(   R!   R'   t   topk_score_weightedR"   R   t   correct_nodest   row_sumst   alignment_scoret   sorted_indicest
   node_indext   target_alignmentR:   t   possible_alignmentst   possible_valuest   node_sorted_indices(    (    sA   /Users/mheimann/Documents/GitHub/src_official/REGAL/alignments.pyR)   K   s2    
,
(   t   numpyR   t   scipy.iot   iot   siot   sklearn.metrics.pairwiseR
   t   scipy.sparseR    R   t   sklearn.neighborsR   t   sparseRC   t   scipy.spatial.distanceR   R   R   R   R&   t   FalseR-   R	   R)   (    (    (    sA   /Users/mheimann/Documents/GitHub/src_official/REGAL/alignments.pyt   <module>   s   	