Package Bio :: Package SeqIO :: Module Interfaces :: Class SequenceIterator
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Class SequenceIterator

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Known Subclasses:

Base class for building SeqRecord iterators.

You should write a next() method to return SeqRecord objects. You may wish to redefine the __init__ method as well.

Instance Methods [hide private]
 
__init__(self, handle, alphabet=Alphabet())
Create a SequenceIterator object.
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next(self)
Return the next record in the file This method should be replaced by any derived class to do something useful.
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__iter__(self)
Iterate over the entries as a SeqRecord objects
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Method Details [hide private]

__init__(self, handle, alphabet=Alphabet())
(Constructor)

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Create a SequenceIterator object.

handle - input file
alphabet - optional, e.g. Bio.Alphabet.generic_protein

Note when subclassing:
- there should be a single non-optional argument,
  the handle.
- you do not have to require an alphabet.
- you can add additional optional arguments.

__iter__(self)

source code 
Iterate over the entries as a SeqRecord objects

Example usage for Fasta files:

myFile = open("example.fasta","r")
myFastaReader = FastaIterator(myFile)
for record in myFastaReader :
    print record.id
    print record.seq
myFile.close()