ó
šxTc        
   @   s  d  d l  m Z d  d l m Z i e j d 6e j d 6e j d 6Z i e j d 6e j	 d 6e j
 d 6e j d	 6Z d
 „  Z d „  Z d „  Z d „  Z d  d l Z e j d d ƒ Z e j d d d d d e j ƒe j d d ƒ Z e j d d d ƒZ e j d e ƒ e j d d d d e j d ƒ d d  ƒe j d! d" d# e j ƒ  d d$ d% d ƒe j d& d d' ƒZ e j d e ƒ e j d d d d e j d ƒ d d  ƒe j d( d d) d e d% d* d d+ ƒe j d, d d- d% e d d. ƒe j d/ d0 d# e j ƒ  d d1 d% d ƒe j d2 d d3 ƒZ  e  j d e ƒ e  j d d d d e j d ƒ d d  ƒe  j d( d d) d e d% d* d d+ ƒe! d4 k re j" ƒ  Z# d  d l$ Z$ e j% d5 e$ j& ƒ Z' d  d l( Z( e( j) e# j* ƒ \ Z+ Z, e# j- d6 e' d7 e+ d8 e, d9 e# ƒ n  d S(:   iÿÿÿÿ(   t   brunett(   t   outputt   textt   xmlt   scriptt   singlet   ensemblet   combineds   best-single-modelc         C   s   t  | j d | d |  ƒ d  S(   Nt	   selectiont   logger(   t
   FORMAT_FORt   format(   R	   t   prefixR   t   args(    (    sQ   /public2/ftp/pub/ccp4/6.5/ccp4-6.5/lib/py2/phaser/command_line/MRage_solutions.pyt   show   s    c      	   C   sã   t  j d | d |  ƒ |  j d d | ƒ |  j d t j ƒ  ƒ | d k  sa t | j ƒ | k  r} d d l m } | d ‚ n  | j | d } t  j	 d	 | j
 d
 | d | d |  ƒ |  j d t j ƒ  ƒ | j
 j j d |  ƒ | S(   NR   R	   t   msgs   Selected: %di   iÿÿÿÿ(   t   Sorrys   Non-existent solutiont   caset   indext	   structure(   R    t   print_solutions_as_textt   infoR   t   blankt   lent	   solutionst   libtbx.utilsR   t   print_solution_infoR   t   problemt   load(   R	   R   R   R   R   (    (    sQ   /public2/ftp/pub/ccp4/6.5/ccp4-6.5/lib/py2/phaser/command_line/MRage_solutions.pyt!   prepare_data_and_select_structure   s    !		c         C   sì   t  d |  d | d | j ƒ } |  j d d ƒ t j d | j j ƒ  d | d d	 | | j f d
 |  j d t | j ƒ \ } } |  j d d | ƒ |  j d d | ƒ |  j d d ƒ | j	 rè d d l
 m } | j d | d | ƒ n  d  S(   NR	   R   R   R   s   Regenerating solution...t   dataR   t   roots   %s_%dt   streamt   methods   PDB file: %ss   Map file: %ss   Done!iÿÿÿÿ(   t	   tbx_utilst   pdb_filet   mtz_file(   R   R   R   R    t   run_llg_jobR   t   calculation_datat   OUTPUT_WITHR   t   coott   phaserR"   t   display_in_coot(   R	   R   R   R   R   R#   R$   R"   (    (    sQ   /public2/ftp/pub/ccp4/6.5/ccp4-6.5/lib/py2/phaser/command_line/MRage_solutions.pyt   extract1   s"    			c         C   sD   t  d |  d | d | j ƒ } t j d | d | j d |  j ƒ d  S(   NR	   R   R   R   R   R    (   R   R   R    t   calculate_success_probabilityR   R   (   R	   R   R   R   R   (    (    sQ   /public2/ftp/pub/ccp4/6.5/ccp4-6.5/lib/py2/phaser/command_line/MRage_solutions.pyt   evaluateK   s    		Nt   descriptions   Manipulate MR solution lists	   --versiont   actiont   versions   %st   titles   Valid subcommandsR   t   helps   show solution listt   funct	   file_namet   metavars   results-filet   typet   rs   molecular replacement resultss   -fs   --formatt   choicess   Listing formatt   defaultR+   s5   generate model and map according to selected solutions   --indext   storei   s   index of solution to extracts   --coott
   store_trues   Load up solution in COOTs   -os   --outputs   Output formatR-   s>   evaluate selected solution to determine probability of successt   __main__R    R	   R   R   R   (.   t   phaser.pipelineR    R)   R   R   t   print_solutions_as_xmlt   print_solutions_as_scriptR
   t   structure_output_singlet   structure_output_ensemblet   structure_output_combinedt"   structure_output_best_single_modelR'   R   R   R+   R-   t   argparset   ArgumentParsert   parsert   add_argumentt   VERSIONt   add_subparserst
   subparserst
   add_parsert   parser_showt   set_defaultst   FileTypet   keyst   parser_extractt   intt   Falset   parser_evaluatet   __name__t
   parse_argsR   t   syst   SingleStreamt   stdoutR	   t   pickleR   R4   R   R   R3   (    (    (    sQ   /public2/ftp/pub/ccp4/6.5/ccp4-6.5/lib/py2/phaser/command_line/MRage_solutions.pyt   <module>   sª   




											