o Rŀg0 @s4dZddlmZGdddeZddZddZd S) z5Parse Cluster Buster position frequency matrix files.)motifsc@seZdZdZddZdS)RecordzClass to store the information in a Cluster Buster matrix table. The record inherits from a list containing the individual motifs. cCsddd|DS)zBReturn a string representation of the motifs in the Record object. css|]}t|VqdS)N)str).0motifrL/var/www/html/myenv/lib/python3.10/site-packages/Bio/motifs/clusterbuster.py sz!Record.__str__..)join)selfrrr __str__szRecord.__str__N)__name__ __module__ __qualname____doc__r rrrr r s rcsd}t}ggggdd}|D]R}|}|rb|drD|dkr0tjdd}||_|||dd}ggggd|d7}q|d rJq|}t|d krbfd d t gd|Dqtjdd}||_|||S) zRead motifs in Cluster Buster position frequency matrix format from a file handle. Cluster Buster motif format: http://zlab.bu.edu/cluster-buster/help/cis-format.html r)ACGT>GATC)alphabetcountsN#cs"g|] \}}|t|qSr)appendfloat)r nucleotidenucleotide_countnucleotide_countsrr 4szread..) rstrip startswithrMotifnamersplitlenzip)handle motif_nbrrecord motif_namelinermatrix_columnsrr"r reads:       r2cCspg}|D],}d|jd}||t|jd|jd|jd|jdD] }|dj|q%qd|}|S) zWReturn the representation of motifs in Cluster Buster position frequency matrix format.rrrrrrz {:0.0f} {:0.0f} {:0.0f} {:0.0f} r)r(rr+rformatr )rlinesmr0 ACGT_countstextrrr writeBs   r8N)rBiorlistrr2r8rrrr s   +