From: cmzmasek@gmail.com Date: Fri, 20 Jul 2012 00:58:48 +0000 (+0000) Subject: in progress X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=2a3ed6af6e22ea427f3f0102d59827ec80d495bf;p=jalview.git in progress --- diff --git a/forester/ruby/evoruby/lib/evo/apps/multi_sequence_extractor.rb b/forester/ruby/evoruby/lib/evo/apps/multi_sequence_extractor.rb index d78f0dc..3578218 100644 --- a/forester/ruby/evoruby/lib/evo/apps/multi_sequence_extractor.rb +++ b/forester/ruby/evoruby/lib/evo/apps/multi_sequence_extractor.rb @@ -315,7 +315,7 @@ module Evoruby s = range.split("-") from = s[ 0 ].to_i to = s[ 1 ].to_i - new_msa_domains.add_sequence( Sequence.new( orig_name + "/" + from.to_s + "-" + to.to_s + " [" + basename + "] [" + current_species + "]", seq.get_sequence_as_string[from..to] ) ) + new_msa_domains.add_sequence( Sequence.new( orig_name + " [" + from.to_s + "-" + to.to_s + "] [" + basename + "] [" + current_species + "]", seq.get_sequence_as_string[from..to] ) ) if extension > 0 from_e = from - extension if from_e < 0 @@ -325,7 +325,7 @@ module Evoruby if to_e > seq.get_sequence_as_string.length - 1 to_e = seq.get_sequence_as_string.length - 1 end - new_msa_domains_extended.add_sequence( Sequence.new( orig_name + "/" + from.to_s + "-" + to.to_s + " [ext: " + extension.to_s + "] [" + basename + "] [" + current_species + "]", + new_msa_domains_extended.add_sequence( Sequence.new( orig_name + " [" + from.to_s + "-" + to.to_s + "] [extended by " + extension.to_s + "] [" + basename + "] [" + current_species + "]", seq.get_sequence_as_string[ from_e..to_e ] ) ) end end