o Rŀg @s:dZGdddZGdddZGdddZddZd S) z;Code to interact with the primersearch program from EMBOSS.c@s(eZdZdZddZddZddZdS) InputRecordzRepresent the input file into the primersearch program. This makes it easy to add primer information and write it out to the simple primer file format. cCs g|_dSInitialize the class.N primer_infoselfrK/var/www/html/myenv/lib/python3.10/site-packages/Bio/Emboss/PrimerSearch.py__init__ zInputRecord.__init__cCs4d}|jD]\}}}||d|d|d7}q|S)z4Summarize the primersearch input record as a string.  r)routputnameprimer1primer2rrr __str__szInputRecord.__str__cCs|j|||fdS)z%Add primer information to the record.N)rappend)r primer_namefirst_primer_seqsecond_primer_seqrrr add_primer_setszInputRecord.add_primer_setN)__name__ __module__ __qualname____doc__r rrrrrr r s  rc@eZdZdZddZdS) OutputRecordzRepresent the information from a primersearch job. amplifiers is a dictionary where the keys are the primer names and the values are a list of PrimerSearchAmplifier objects. cCs i|_dSr) amplifiersrrrr r )r zOutputRecord.__init__Nrrrrr rrrr r"s rc@r) Amplifierz/Represent a single amplification from a primer.cCsd|_d|_dS)rr N)hit_infolengthrrrr r 1s zAmplifier.__init__Nr rrrr r!.s r!cCst}|D]N}|s q|dr|d}g|j|<q|dr.t}|j||q|dr;|dd|_q|drL|d}t ||_ q|j|7_q|jD]}|j|D]}|j |_q^qW|S)z=Get output from primersearch into a PrimerSearchOutputRecord.z Primer nameAmplimerz Sequence: r z Amplimer length: ) rstrip startswithsplitrr!rreplacer#intr$rstrip)handlerecordliner amplifierr$rrr read7s*         r2N)rrrr!r2rrrr s