:>"^Úã@sNdZGdd„deƒZGdd„deƒZdd„Zdd„Zd S) aÍCode to parse output from the EMBOSS eprimer3 program. As elsewhere in Biopython there are two input functions, read and parse, for single record output and multi-record output. For primer3, a single record object is created for each target sequence and may contain multiple primers. i.e. If you ran eprimer3 with a single target sequence, use the read function. If you ran eprimer3 with multiple targets, use the parse function to iterate over the retsults. c@s"eZdZdZdd„ZdS)ÚRecordzîRepresent information from a primer3 run finding primers. Members: - primers - list of Primer objects describing primer pairs for this target sequence. - comments - the comment line(s) for the record cCsd|_g|_dS)zInitialize the class.ÚN)ÚcommentsÚprimers)Úself©rú7/tmp/pip-build-ww9dw3qa/biopython/Bio/Emboss/Primer3.pyÚ__init__%s zRecord.__init__N)Ú__name__Ú __module__Ú __qualname__Ú__doc__rrrrrrs rc@s.eZdZdZdd„Zdd„ZdS)ÚPrimersaýA primer set designed by Primer3. Members: - size - length of product, note you can use len(primer) as an alternative to primer.size - forward_seq - forward_start - forward_length - forward_tm - forward_gc - reverse_seq - reverse_start - reverse_length - reverse_tm - reverse_gc - internal_seq - internal_start - internal_length - internal_tm - internal_gc cCs”d|_d|_d|_d|_d|_d|_d|_d|_d|_d|_ d|_ d|_ d|_ d|_ d|_d|_dS)zInitialize the class.érgN)ÚsizeÚ forward_seqÚ forward_startÚforward_lengthÚ forward_tmÚ forward_gcÚ reverse_seqÚ reverse_startÚreverse_lengthÚ reverse_tmÚ reverse_gcÚ internal_seqÚinternal_startÚinternal_lengthÚ internal_tmÚ internal_gc)rrrrrGs                zPrimers.__init__cCs|jS)z1Length of the primer product (i.e. product size).)r)rrrrÚ__len__ZszPrimers.__len__N)r r r r rrrrrrr +s  r ccskx|jƒ}|jƒrPqWd}d}x-|jdƒsM|jdƒr|dk r^|Vtƒ}|j|7_d}n³|jdƒr²|jƒdkr2|j|7_n€|jƒsÁnq|dd…dkr tƒ}t|dd…ƒ|_|jj |ƒn&|dd…d kr¹|j ƒ}| sD|jd kr]tƒ}|jj |ƒt|d ƒ|_ t|d ƒ|_ t |d ƒ|_t |dƒ|_|d|_ny|dd…dkrf|j ƒ}| sñ|jd kr tƒ}|jj |ƒt|d ƒ|_t|d ƒ|_t |d ƒ|_t |dƒ|_|d|_nÌ|dd…dkr2|j ƒ}| sž|jd kr·tƒ}|jj |ƒt|d ƒ|_t|d ƒ|_t |d ƒ|_t |dƒ|_y|d|_Wntk r1d|_YnXyt|ƒ}Wq/tk rWPYq/Xq/W|rg|VdS)zAIterate over primer3 output as Bio.Emboss.Primer3.Record objects.Nz # EPRIMER3z # PRIMER3ú#z9# Start Len Tm GC% SequenceéézPRODUCT SIZE: zFORWARD PRIMERréééézREVERSE PRIMERzINTERNAL OLIGOr)ÚreadlineÚstripÚ startswithrrr ÚintrrÚappendÚsplitrrÚfloatrrrrrrrrrrrrrÚ IndexErrorÚnextÚ StopIteration)ÚhandleÚlineÚrecordZprimerÚwordsrrrÚparse_sz                r5cCs„t|ƒ}yt|ƒ}Wntk r<tdƒ‚YnXyt|ƒ}Wntk rgd}YnX|dk r€tdƒ‚|S)zÌParse primer3 output into a Bio.Emboss.Primer3.Record object. This is for when there is one and only one target sequence. If designing primers for multiple sequences, use the parse function. zNo records found in handleNz$More than one record found in handle)r5r/r0Ú ValueError)r1ÚiteratorÚfirstÚsecondrrrÚread¤s      r:N)r Úobjectrr r5r:rrrrÚs4 E