Package Bio :: Package config :: Module FormatRegistry
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Module Bio.config.FormatRegistry

Implements a Registry to store Martel-type format expressions.

Classes: FormatRegistry Holds Biopython formats in a dictionary-like interface. FormatObject Describes a Biopython file format. FormatGroup Describes a group of Biopython file formats.
Classes
FormatGroup This object holds a group of FormatObjects.
FormatObject This object stores Biopython file formats and provides methods to work on them.
FormatRegistry This implements a dictionary-like interface to Biopython file formats.

Function Summary
  _load_expression(path)
  _load_first_existing(basemodulename, possible_formats)
  _load_object(path)
  _normalize_expression(expression_or_path)
  _parses_file(expression, infile, debug_level)
  _parses_string(expression, s, debug_level)

Variable Summary
FormatRegistry formats = formats, exporting 'blast', 'blastn', 'blastp'...

Variable Details

formats

Type:
FormatRegistry
Value:
formats, exporting 'blast', 'blastn', 'blastp', 'blastx', 'embl', 'emb\
l/65', 'empty', 'fasta', 'genbank', 'genbank-records', 'genbank-releas\
e', 'ipi', 'ncbi-blastn', 'ncbi-blastp', 'ncbi-blastx', 'ncbi-tblastn'\
, 'ncbi-tblastx', 'search', 'sequence', 'swissprot', 'swissprot/38', '\
swissprot/40', 'tblastn', 'tblastx', 'wu-blastn', 'wu-blastp', 'wu-bla\
stx'                                                                   

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