Bio.config.FormatRegistry

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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