file_fasta = File.join(options[:directory], "sequence_in.fna")
Biopieces.open(options[:stream_in], options[:stream_out]) do |input, output|
file_fasta = File.join(options[:directory], "sequence_in.fna")
Biopieces.open(options[:stream_in], options[:stream_out]) do |input, output|
velvet.run_velvetg(options[:ins_length], options[:type].match("Paired"))
file_contigs = velvet.pick_best_assembly
velvet.run_velvetg(options[:ins_length], options[:type].match("Paired"))
file_contigs = velvet.pick_best_assembly