From c646f6a63471770f9e5004b5420d6f098717bab5 Mon Sep 17 00:00:00 2001 From: "cmzmasek@gmail.com" Date: Tue, 2 Oct 2012 20:14:37 +0000 Subject: [PATCH] refactored --- forester/ruby/evoruby/exe/d2f.rb | 2 +- forester/ruby/evoruby/exe/dsx.rb | 2 +- forester/ruby/evoruby/exe/evo_nursery.rb | 2 +- forester/ruby/evoruby/exe/fasta_tap.rb | 2 +- forester/ruby/evoruby/exe/hsp.rb | 2 +- forester/ruby/evoruby/exe/msa_pro.rb | 2 +- forester/ruby/evoruby/exe/mse.rb | 2 +- forester/ruby/evoruby/exe/tap.rb | 2 +- forester/ruby/evoruby/exe/test.rb | 6 +++--- forester/ruby/evoruby/exe/tseq_tap.rb | 2 +- 10 files changed, 12 insertions(+), 12 deletions(-) diff --git a/forester/ruby/evoruby/exe/d2f.rb b/forester/ruby/evoruby/exe/d2f.rb index 132ed3a..ea43e15 100755 --- a/forester/ruby/evoruby/exe/d2f.rb +++ b/forester/ruby/evoruby/exe/d2f.rb @@ -9,7 +9,7 @@ # # last modified: 06/11/2007 -require 'lib/evo/tools/domains_to_forester' +require 'lib/evo/tool/domains_to_forester' module Evoruby diff --git a/forester/ruby/evoruby/exe/dsx.rb b/forester/ruby/evoruby/exe/dsx.rb index cbee678..02091bf 100755 --- a/forester/ruby/evoruby/exe/dsx.rb +++ b/forester/ruby/evoruby/exe/dsx.rb @@ -9,7 +9,7 @@ # # last modified: 06/11/2007 -require 'lib/evo/tools/domain_sequence_extractor' +require 'lib/evo/tool/domain_sequence_extractor' module Evoruby diff --git a/forester/ruby/evoruby/exe/evo_nursery.rb b/forester/ruby/evoruby/exe/evo_nursery.rb index 61fa33d..dd720bd 100755 --- a/forester/ruby/evoruby/exe/evo_nursery.rb +++ b/forester/ruby/evoruby/exe/evo_nursery.rb @@ -9,7 +9,7 @@ # # last modified: 2009/10/07 -require 'lib/evo/tools/evo_nursery' +require 'lib/evo/tool/evo_nursery' module Evoruby diff --git a/forester/ruby/evoruby/exe/fasta_tap.rb b/forester/ruby/evoruby/exe/fasta_tap.rb index 7eff7a2..66448b1 100755 --- a/forester/ruby/evoruby/exe/fasta_tap.rb +++ b/forester/ruby/evoruby/exe/fasta_tap.rb @@ -8,7 +8,7 @@ # $Id: fasta_tap.rb,v 1.1 2009/01/20 20:44:54 cmzmasek Exp $ -require 'lib/evo/tools/fasta_taxonomy_processor' +require 'lib/evo/tool/fasta_taxonomy_processor' module Evoruby diff --git a/forester/ruby/evoruby/exe/hsp.rb b/forester/ruby/evoruby/exe/hsp.rb index 92ed8e0..493cc2d 100755 --- a/forester/ruby/evoruby/exe/hsp.rb +++ b/forester/ruby/evoruby/exe/hsp.rb @@ -9,7 +9,7 @@ # # last modified: 11/24/2009 -require 'lib/evo/tools/hmmscan_parser' +require 'lib/evo/tool/hmmscan_parser' module Evoruby diff --git a/forester/ruby/evoruby/exe/msa_pro.rb b/forester/ruby/evoruby/exe/msa_pro.rb index 240d7b0..ce8192a 100755 --- a/forester/ruby/evoruby/exe/msa_pro.rb +++ b/forester/ruby/evoruby/exe/msa_pro.rb @@ -9,7 +9,7 @@ # -require 'lib/evo/tools/msa_processor' +require 'lib/evo/tool/msa_processor' module Evoruby diff --git a/forester/ruby/evoruby/exe/mse.rb b/forester/ruby/evoruby/exe/mse.rb index d818136..6dd0c7b 100755 --- a/forester/ruby/evoruby/exe/mse.rb +++ b/forester/ruby/evoruby/exe/mse.rb @@ -8,7 +8,7 @@ # $Id: mse.rb,v 1.2 2008/08/28 17:09:06 cmzmasek Exp $ -require 'lib/evo/tools/multi_sequence_extractor' +require 'lib/evo/tool/multi_sequence_extractor' module Evoruby diff --git a/forester/ruby/evoruby/exe/tap.rb b/forester/ruby/evoruby/exe/tap.rb index 57eb8fe..33c66e0 100755 --- a/forester/ruby/evoruby/exe/tap.rb +++ b/forester/ruby/evoruby/exe/tap.rb @@ -9,7 +9,7 @@ # # last modified: 05/18/2007 -require 'lib/evo/tools/taxonomy_processor' +require 'lib/evo/tool/taxonomy_processor' module Evoruby diff --git a/forester/ruby/evoruby/exe/test.rb b/forester/ruby/evoruby/exe/test.rb index 4a7fa5e..cc9c466 100755 --- a/forester/ruby/evoruby/exe/test.rb +++ b/forester/ruby/evoruby/exe/test.rb @@ -25,9 +25,9 @@ require 'lib/evo/io/writer/fasta_writer' require 'lib/evo/io/parser/fasta_parser' require 'lib/evo/io/parser/ncbi_tseq_parser' require 'lib/evo/io/parser/hmmsearch_domain_extractor' -require 'lib/evo/tools/domain_sequence_extractor' -require 'lib/evo/tools/hmmscan_parser' -require 'lib/evo/tools/domains_to_forester' +require 'lib/evo/tool/domain_sequence_extractor' +require 'lib/evo/tool/hmmscan_parser' +require 'lib/evo/tool/domains_to_forester' require 'lib/evo/io/parser/general_msa_parser' require 'lib/evo/io/parser/basic_table_parser' require 'lib/evo/util/command_line_arguments' diff --git a/forester/ruby/evoruby/exe/tseq_tap.rb b/forester/ruby/evoruby/exe/tseq_tap.rb index 4e467e0..dde6901 100755 --- a/forester/ruby/evoruby/exe/tseq_tap.rb +++ b/forester/ruby/evoruby/exe/tseq_tap.rb @@ -8,7 +8,7 @@ # $Id: tseq_tap.rb,v 1.1 2008/12/31 06:00:08 cmzmasek Exp $ -require 'lib/evo/tools/tseq_taxonomy_processor' +require 'lib/evo/tool/tseq_taxonomy_processor' module Evoruby -- 1.7.10.2