Class: Ms::Select::Fasta

Inherits:
Tap::Task
  • Object
show all
Defined in:
lib/ms/select/fasta.rb

Overview

:startdoc::task selects entries from a fasta file

Load the selected entries from a fasta file. Entries are returned as an array and by default as Ms::Fasta::Entry objects.

Instance Method Summary collapse

Instance Method Details

#process(fasta_file) ⇒ Object 



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# File 'lib/ms/select/fasta.rb', line 15

def process(fasta_file)
  Ms::Fasta::Archive.open(fasta_file) do |archive|
    entries = archive[range]
    
    # totally wasteful... ExternalArchive needs
    # a way to read a selection of string without
    # conversion to entries.
    # watch (http://bahuvrihi.lighthouseapp.com/projects/10590-external/tickets/7-for-strings)
    entries.collect! {|entry| entry.to_s } if fasta
    entries
  end
end