Code for more fancy file handles.

Classes: Filtered is a decorator for File that allows the user to filter the output on a line by line basis.

The FilteredReader module reads a file and applies a sequence of filters to the input The constructor sets a default filter chain, but the user can select another filter by setting Bio.FilteredReader.filter_chain.

handle = open( "filename" ) filtered_reader = Bio.FilteredReader( handle ) filtered_reader.filter_chain = [ remove_asterisks, replace_dot_with_dash ] filtered_reasder.read()

All filters in the chain must provide the same interface with a line of text as the single input parameter and altered text as the return value.

dump_saved (
        name,
        text,
        j,
        )

fix_punctuation ( line )

has_trailing_linefeed ( line )

remove_empty_line ( line )

remove_useless_dot ( line )