Create a GenBank Record object from scanner generated information.
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Methods
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__init__
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__init__ ( self )
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_add_feature
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_add_feature ( self )
Utility function to add a feature to the Record.
This does all of the appropriate checking to make sure we haven't
left any info behind, and that we are only adding info if it
exists.
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accession
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accession ( self, content )
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authors
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authors ( self, content )
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base_count
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base_count ( self, content )
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comment
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comment ( self, content )
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contig_location
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contig_location ( self, content )
Signal that we have contig information to add to the record.
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data_file_division
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data_file_division ( self, content )
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date
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date ( self, content )
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db_source
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db_source ( self, content )
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definition
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definition ( self, content )
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feature_key
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feature_key ( self, content )
Grab the key of the feature and signal the start of a new feature.
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features_line
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features_line ( self, content )
Get ready for the feature table when we reach the FEATURE line.
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gi
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gi ( self, content )
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journal
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journal ( self, content )
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keywords
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keywords ( self, content )
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location
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location ( self, content )
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locus
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locus ( self, content )
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medline_id
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medline_id ( self, content )
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nid
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nid ( self, content )
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organism
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organism ( self, content )
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origin_name
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origin_name ( self, content )
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pid
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pid ( self, content )
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pubmed_id
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pubmed_id ( self, content )
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qualifier_key
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qualifier_key ( self, content )
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qualifier_value
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qualifier_value ( self, content )
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record_end
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record_end ( self, content )
Signal the end of the record and do any necessary clean-up.
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reference_bases
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reference_bases ( self, content )
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reference_num
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reference_num ( self, content )
Grab the reference number and signal the start of a new reference.
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remark
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remark ( self, content )
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residue_type
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residue_type ( self, content )
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segment
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segment ( self, content )
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sequence
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sequence ( self, content )
Add sequence information to a list of sequence strings.
This removes spaces in the data and uppercases the sequence, and
then adds it to a list of sequences. Later on we'll join this
list together to make the final sequence. This is faster than
adding on the new string every time.
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size
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size ( self, content )
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source
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source ( self, content )
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start_feature_table
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start_feature_table ( self )
Signal the start of the feature table.
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taxonomy
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taxonomy ( self, content )
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title
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title ( self, content )
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version
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version ( self, content )
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