Package csb :: Package bio :: Package io :: Module fasta :: Class A3MOutputBuilder

Class A3MOutputBuilder

   object --+    
            |    
OutputBuilder --+
                |
               A3MOutputBuilder

Formats sequences as A3M strings. When appending an alignment, this builder will write all insertion-containing columns in lower case. Also, gap symbols are omitted if the respective columns contain insertions.

See OutputBuilder.

Nested Classes
Inherited from `OutputBuilder`: `__metaclass__`

Instance Methods

add_alignment(self, alignment)
Format and append an alignment to the product.

source code

add_sequence(self, sequence)
Format and append a new sequence to the product.

source code

Inherited from OutputBuilder: __init__, add_comment, add_many, add_separator, write, writeline

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

Static Methods
Inherited from `OutputBuilder`: `create`, `register`

Class Variables
	FORMAT = `A3M`
	__abstractmethods__ = `frozenset([])`

Properties

Inherited from OutputBuilder: headers, output

Inherited from object: __class__

Method Details

add_alignment(self, alignment)

source code

Format and append an alignment to the product.

Overrides: OutputBuilder.add_alignment: (inherited documentation)

add_sequence(self, sequence)

source code

Format and append a new sequence to the product.

Overrides: OutputBuilder.add_sequence: (inherited documentation)