ó
?îec           @   sÄ   d  Z  d d l Z d d l Z d d l Z e j d i e j ƒ  d 6ƒ d d l m Z d d l	 m
 Z
 d d l Z d d l m Z d d l Z d d l Z d „  Z d	 d d
 „  ƒ  YZ d „  Z d S(   s.   
Script to make V-plot

@author: Alicia Schep
iÿÿÿÿNt
   setup_argst   include_dirs(   t	   ChunkList(   t   FragmentMat2D(   t   Poolc      	   C   sJ  |  \ } } t  j | j | j d | j d f ƒ } x| D]} yÁ | j ƒ  t | j | j | j d | j	 | j | j | j | j
 ƒ } | j | j ƒ | j d | j | j d | j	 | j d | j d k ƒ } | j rù | t  j | ƒ } n  | | 7} Wq= t k
 rA} d | j ƒ  d GHt j ƒ  d	 GH| ‚ q= Xq= W| S(
   s+   function to make vplot for one region

    i   i   t   startt   endt   flipt   -s"   Caught exception when processing:
s   
(    (   t   npt   zerost   uppert   lowert   flankt   centerR   t   chromR   R   t   atact   makeFragmentMatt   bamt   gett   strandt   scalet   sumt	   Exceptiont   asBedt	   tracebackt	   print_exc(   t   argt   chunkst   paramst   resultt   chunkt   submatt   addt   e(    (    s7   /tmp/pip-install-bGcd2k/NucleoATAC/pyatac/make_vplot.pyt   _vplotHelper   s"    *
?;	
t   _VplotParamsc           B   s   e  Z d  Z d „  Z RS(   s1   Class to store parameters for use in _vplotHelperc         C   s:   | |  _  | |  _ | |  _ | |  _ | |  _ | |  _ d  S(   N(   R   R   R   R   R   R   (   t   selfR   R   R   R   R   R   (    (    s7   /tmp/pip-install-bGcd2k/NucleoATAC/pyatac/make_vplot.pyt   __init__/   s    					(   t   __name__t
   __module__t   __doc__R&   (    (    (    s7   /tmp/pip-install-bGcd2k/NucleoATAC/pyatac/make_vplot.pyR$   -   s   c         C   s¯  |  j  s= d j t j j |  j ƒ j d ƒ d d !ƒ |  _  n  t j |  j d |  j	 ƒ} | j d t
 |  j d t | ƒ ƒ ƒ } t d |  j d |  j d	 |  j d
 |  j d |  j d |  j ƒ } t d |  j ƒ } | j t t | t j | ƒ ƒ ƒ } | j ƒ  | j ƒ  t | ƒ } t j | |  j |  j ƒ } |  j sS| j d |  j  d ƒ n  |  j  r—| j! ƒ  | j" d |  j  d ƒ | j# d |  j  d ƒ n  | j$ |  j  d ƒ d S(   s   function to make vplot

    t   .i    iÿÿÿÿt
   strand_colt   itemsi   R   R   R   R   R   R   t	   processest   filenames
   .Vplot.epss   .InsertionProfile.epss   .InsertSizes.epss   .VMatN(%   t   outt   joint   ost   patht   basenamet   bedt   splitR   t   readR   t   mint   corest   lenR$   R   R   R   R   R   R   R   t   mapR#   t   zipt	   itertoolst   repeatt   closeR   t   Vt   VMatt   no_plott   plott
   plot_extrat
   converto1dt   plot_1dt   plot_insertsizet   save(   t   argsR   t   setsR   t   poolt   tmpR   t   vmat(    (    s7   /tmp/pip-install-bGcd2k/NucleoATAC/pyatac/make_vplot.pyt
   make_vplot;   s&    	4(*$

		
(    (   R)   R1   t   numpyR	   t	   pyximportt   installt   get_includet   pyatac.chunkR   t   pyatac.chunkmat2dR   R@   R?   t   multiprocessingR   R<   R   R#   R$   RM   (    (    (    s7   /tmp/pip-install-bGcd2k/NucleoATAC/pyatac/make_vplot.pyt   <module>   s    	