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object --+ | InsdcScanner --+ | GenBankScanner
For extracting chunks of information in GenBank files
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Inherited from Inherited from Inherited from |
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RECORD_START =
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HEADER_WIDTH = 12
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FEATURE_START_MARKERS =
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FEATURE_END_MARKERS =
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FEATURE_QUALIFIER_INDENT = 21
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FEATURE_QUALIFIER_SPACER =
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SEQUENCE_HEADERS =
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Inherited from |
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returns a tuple containing a list of any misc strings, and the sequence
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Scan over and parse GenBank LOCUS line (PRIVATE). This must cope with several variants, primarily the old and new column based standards from GenBank. Additionally EnsEMBL produces GenBank files where the LOCUS line is space separated rather that following the column based layout. We also try to cope with GenBank like files with partial LOCUS lines.
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Handle the header lines (list of strings), passing data to the comsumer This should be implemented by the EMBL / GenBank specific subclass Used by the parse_records() and parse() methods.
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Handle any lines between features and sequence (list of strings), passing data to the consumer This should be implemented by the EMBL / GenBank specific subclass Used by the parse_records() and parse() methods.
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FEATURE_START_MARKERS
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