Code to work with GenBank

http://www.ncbi.nlm.nih.gov/

Classes: Iterator Iterate through a file of GenBank entries Dictionary Access a GenBank file using a dictionary interface. ErrorFeatureParser Catch errors caused during parsing. FeatureParser Parse GenBank data in Seq and SeqFeature objects. RecordParser Parse GenBank data into a Record object. NCBIDictionary Access GenBank using a dictionary interface.

_BaseGenBankConsumer A base class for GenBank consumer that implements some helpful functions that are in common between consumers. _FeatureConsumer Create SeqFeature objects from info generated by the Scanner _RecordConsumer Create a GenBank record object from Scanner info. _PrintingConsumer A debugging consumer.

_Scanner Set up a Martel based GenBank parser to parse a record.

ParserFailureError Exception indicating a failure in the parser (ie. scanner or consumer) LocationParserError Exception indiciating a problem with the spark based location parser.

Functions: index_file Get a GenBank file ready to be used as a Dictionary. search_for Do a query against GenBank. download_many Download many GenBank records.