o Rŀg@s(dZddlZddZddZddZdS) z'Methods for parsing yn00 results files.Nc Csg}|D]g}td|}|durktd|d}dd|D}|d}||i||<tdt|d D]2}i} ||| d <||d| d <||d| d <d | i||||d <d | i|||d |<q8q||fS)a:Parse the Nei & Gojobori (1986) section of the results. Nei_Gojobori results are organized in a lower triangular matrix, with the sequence names labeling the rows and statistics in the format: w (dN dS) per column Example row (2 columns): 0.0000 (0.0000 0.0207) 0.0000 (0.0000 0.0421) z1^([^\s]+?)(\s+-?\d+\.\d+.*$|\s*$|-1.0000\s*\(.*$)N -*\d+\.\d+cSg|]}t|qSfloat.0valrrN/var/www/html/myenv/lib/python3.10/site-packages/Bio/Phylo/PAML/_parse_yn00.py ,zparse_ng86..romegadNdSNG86)rematchfindallgroupstripappendrangelen) linesresults sequenceslinematrix_row_resline_floats_res line_floatsseq_nameirrrr parse_ng86 s(    r%c Cs|D]}td|}dd|D}td|}|durt|d}t|d}||d} ||d} i} |d| d <|d| d <|d| d <|d | d <|d| d<|d| d<|d| d<|d| d<|d| d<| || | d<| || | d<d} d} q|S)zParse the Yang & Nielsen (2000) part of the results. Yang & Nielsen results are organized in a table with each row comprising one pairwise species comparison. Rows are labeled by sequence number rather than by sequence name. rcSrrrrrrr r Jr zparse_yn00..z\s+(\d+)\s+(\d+)NrrrSNtrkapparrzdN SErzdS SEYN00)rrrintr) rrrrr!r"row_resseq1seq2 seq_name1 seq_name2r/rrr parse_yn00;s2             r6c CsNd}d}|D]}td|}|dur|d}|d}q|dur|durd|vri}|dd}td|} | D])} | dd } | dd} zt| || <Wq<tyed|| <Yq      rE)__doc__rr%r6rErrrr s . '