o Rŀg@s|dZddlmZddlmZddlmZddlmZGddde Z dd d Z d dZ GdddeZ GdddejZdS)z5Code for calling and parsing ScanProsite from ExPASy.) urlencode)urlopen)handler) ExpatParserc@seZdZdZddZdS)RecordzRepresents search results returned by ScanProsite. This record is a list containing the search results returned by ScanProsite. The record also contains the data members n_match, n_seq, capped, and warning. cCsd|_d|_d|_d|_dSInitialize the class.N)n_matchn_seqcappedwarningselfrJ/var/www/html/myenv/lib/python3.10/site-packages/Bio/ExPASy/ScanProsite.py__init__s zRecord.__init__N)__name__ __module__ __qualname____doc__rrrrrrs rhttps://prosite.expasy.orgxmlc KsN||d}|D] \}}|dur|||<q t|}|d|}t|} | S)a Execute a ScanProsite search. Arguments: - mirror: The ScanProsite mirror to be used (default: https://prosite.expasy.org). - seq: The query sequence, or UniProtKB (Swiss-Prot, TrEMBL) accession - output: Format of the search results (default: xml) Further search parameters can be passed as keywords; see the documentation for programmatic access to ScanProsite at https://prosite.expasy.org/scanprosite/scanprosite_doc.html for a description of such parameters. This function returns a handle to the search results returned by ScanProsite. Search results in the XML format can be parsed into a Python object, by using the Bio.ExPASy.ScanProsite.read function. )seqoutputNz(/cgi-bin/prosite/scanprosite/PSScan.cgi?)itemsrr) rmirrorrkeywords parameterskeyvaluecommandurlhandlerrrscan"s r$cCs*t}t}|||||j}|S)zBParse search results returned by ScanProsite into a Python object.)ContentHandlerParsersetContentHandlerparserecord)r#content_handler saxparserr)rrrreadAs   r,c@s"eZdZdZddZdddZdS) r&z7Process the result from a ScanProsite search (PRIVATE).cCst|d|_dS)rTN)rr firsttimer rrrrQs  zParser.__init__rcCs8|jr|ddddkrt|d|_t|||S)zRaise an Error if plain text is received in the data. This is to show the Error messages returned by ScanProsite. Nzutf-8zDefine the beginning of a record and stores the search record.rmatchsetr r matchN)r<appendcontentrr)intr r )rnameattrsr>rrr startElementxs  zContentHandler.startElementcCsp||jks J|jddgkr6|jd}|tjvr#t|j||<dS|tjvr/|j||<dS|j||<dSdS)z$Define the end of the search record.r=r>N)r<popr)r%integersrAr@strings)rrBr>rrr endElements   zContentHandler.endElementcCs|j|7_dS)zStore the record content.N)r@)rr@rrr charactersszContentHandler.charactersN) rrrrrGrHrrDrIrJrrrrr%gs  r%N)rrr)r urllib.parserurllib.requestrxml.saxrxml.sax.expatreaderrlistrr$r,r&r%rrrrs