U
    e                  	   @   st   d dl ZddlmZmZmZmZmZmZm	Z	 ddl
mZ dZdddd	d
ddddgdfejeeeeejdddZdS )    N   )_rank_length_taxon_to_list_find_top_score	_find_lca_find_super_lca_find_lca_majority_sort_rank_handles)_allowed_rankszmode "score" can only operate on dataframes with taxonomy classification scores in the second column. Use "qiime metadata tabulate" to visually confirm the structure of your data before using this command.lenz^[dkpcofgs]__ZdomainZphylumclassorderZfamilyZgenusZspeciesZ
Unassigned)datamoderank_handle_regexnew_rank_handlesunclassified_labelreturnc           
   	      s  | D ]0}|d  fdd|d< dd |jD |_q|dkrdd | D } tj| dd	d
d} |dkrpt n|dkr~t n|dkrt | j  fdddd}|jdd}n|dkrt	dd   }}|dkr*t
dd	   }}| D ]D}z t|jd d df |d< W q tk
r&   ttY qX qt| } t| }| D ]<}|jj|j ||dj}dgdd |jD  }	||	 }q>d|krt|t|d  fdd|d< n|d  dd |d< |d jd|d	d d|j_|S )NTaxonc                    s   t |  dS )N)Zrank_handle)r   x)r    Ilib/python3.8/site-packages/rescript-2024.2.0-py3.8.egg/rescript/merge.py<lambda>        zmerge_taxa.<locals>.<lambda>c                 S   s   g | ]}|  qS r   )
capitalize.0r   r   r   r   
<listcomp>#   s     zmerge_taxa.<locals>.<listcomp>)lcasupermajorityc                 S   s   g | ]}|d g qS r   r   )r   dr   r   r   r   (   s     r   T)axissort r   r    r!   c                    s    dd | D S )Nc                 S   s   g | ]}|d kr|qS r&   r   r   tr   r   r   r   0   s      0merge_taxa.<locals>.<lambda>.<locals>.<listcomp>r   r   )funcr   r   r   0   r   )r$   )namer   FZscorer   ZScore)
fill_value	overwritec                 S   s   g | ]}|d kr|qS r"   r   r   r   r   r   r   G   s    disablec                    s   d dd t | D S )N;c                 S   s   g | ]}d  |qS r'   joinr(   r   r   r   r   P   s     r*   )r2   zipr   )sorted_rank_handlesr   r   r   P   s   
c                 S   s
   d | S )Nr0   r1   r   r   r   r   r   S   r   )Zinplacez
Feature ID)ZapplycolumnspdconcatZfillnar   r   r   Zto_framer   r   Z
to_numericZiloc
IndexErrorMODE_ERROR_SCOREiternextTZcombiner	   r
   replaceindexr,   )
r   r   r   r   r   r#   resultr-   r.   Zreordered_colsr   )r+   r   r4   r   
merge_taxa   s^    

    


r@   )Zpandasr6   Z
_utilitiesr   r   r   r   r   r   r	   Zncbir
   r9   Z	DataFramestrlistr@   r   r   r   r   <module>
   s&   $   