module Bio::Big::PhylipReader
Public Class Methods
emit_seq(get_line) { |name, seq| ... }
click to toggle source
Define get_line as a lambda function, e.g.
Bio::Big::PhylipReader.emit_seq(-> { lines.next }) { | name, seq | p [name,seq] }
# File lib/bigbio/db/phylip.rb, line 22 def PhylipReader::emit_seq get_line line = get_line.call.strip a = line.split seq_num = a[0].to_i seq_size = a[1].to_i name = nil seq = "" while true line = get_line.call break if line == nil or line == "" line = line.strip if name == nil name = line next end seq += line if seq.size >= seq_size raise "Name wrong size for #{name}" if name.size > 20 raise "Sequence wrong size for #{name}" if seq.size > seq_size yield name, seq name = nil seq = "" end end end