Package csb :: Package bio :: Package io :: Module fasta :: Class PDBSequenceParser

Class PDBSequenceParser

        object --+        
                 |        
BaseSequenceParser --+    
                     |    
        SequenceParser --+
                         |
                        PDBSequenceParser

PDB FASTA parser. Reads the PDB ID and sequence type from the header. See BaseSequenceParser for more details.

Nested Classes
Inherited from `BaseSequenceParser`: `__metaclass__`

Instance Methods

AbstractSequence

read_sequence(self, string)
Parse a single FASTA string

source code

Inherited from BaseSequenceParser: __init__, parse_file, parse_string, read

Inherited from object: __delattr__, __format__, __getattribute__, __hash__, __new__, __reduce__, __reduce_ex__, __repr__, __setattr__, __sizeof__, __str__, __subclasshook__

Class Variables
Inherited from `SequenceParser`: `__abstractmethods__`

Properties

Inherited from BaseSequenceParser: product_factory, product_type

Inherited from object: __class__

Method Details

read_sequence(self, string)

source code

Parse a single FASTA string

Returns: AbstractSequence

a new sequence, created with BaseSequenceParser.product_factory

Raises:

SequenceFormatError - on parse error

Overrides: BaseSequenceParser.read_sequence

(inherited documentation)