B ‰°bá ã@s:dZGdd„dƒZGdd„dƒZGdd„dƒZdd„Zd S) z;Code to interact with the primersearch program from EMBOSS.c@s(eZdZdZdd„Zdd„Zdd„ZdS) Ú InputRecordz¥Represent 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|_dS)zInitialize the class.N)Ú primer_info)Úself©rú6lib/python3.7/site-packages/Bio/Emboss/PrimerSearch.pyÚ__init__szInputRecord.__init__cCs0d}x&|jD]\}}}|d|||f7}q W|S)z4Summarize the primersearch input record as a string.Úz %s %s %s )r)rÚoutputÚnameZprimer1Zprimer2rrrÚ__str__szInputRecord.__str__cCs|j |||f¡dS)z%Add primer information to the record.N)rÚappend)rZ primer_nameZfirst_primer_seqZsecond_primer_seqrrrÚadd_primer_setszInputRecord.add_primer_setN)Ú__name__Ú __module__Ú __qualname__Ú__doc__rr r rrrrr src@seZdZdZdd„ZdS)Ú OutputRecordz»Represent 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|_dS)zInitialize the class.N)Ú amplifiers)rrrrr)szOutputRecord.__init__N)r rrrrrrrrr"src@seZdZdZdd„ZdS)Ú Amplifierz/Represent a single amplification from a primer.cCsd|_d|_dS)zInitialize the class.réN)Úhit_infoÚlength)rrrrr1szAmplifier.__init__N)r rrrrrrrrr.srcCsâtƒ}x¦|D]ž}| ¡sq q | d¡r>| ¡d}g|j|<q | d¡r`tƒ}|j| |¡q | d¡rz| dd¡|_q | d¡rœ| ¡d}t |ƒ|_ q |j|7_q Wx.|jD]$}x|j|D]}|j  ¡|_qÆWq¶W|S)z=Get output from primersearch into a PrimerSearchOutputRecord.z Primer nameéÿÿÿÿZAmplimerz Sequence: rz Amplimer length: éþÿÿÿ) rÚstripÚ startswithÚsplitrrr ÚreplacerÚintrÚrstrip)ZhandleÚrecordÚliner Z amplifierrrrrÚread7s(          r!N)rrrrr!rrrrÚs