infile = File.join(tmpdir, "in.fna")
outfile = File.join(tmpdir, "out.prodigal")
-Fasta.open(infile, mode="w") do |fasta_output|
+Fasta.open(infile, "w") do |fasta_output|
Biopieces.open(options[:stream_in], options[:stream_out]) do |input, output|
input.each_record do |record|
if record[:SEQ]