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[jalview.git] / forester / ruby / evoruby / exe / run_phylo_pipeline.rb

diff --git a/forester/ruby/evoruby/exe/run_phylo_pipeline.rb b/forester/ruby/evoruby/exe/run_phylo_pipeline.rb
index a36f56a..d09655f 100755 (executable)
--- a/forester/ruby/evoruby/exe/run_phylo_pipeline.rb
+++ b/forester/ruby/evoruby/exe/run_phylo_pipeline.rb
@@ -27,11 +27,13 @@ module Evoruby
 
     def run
       unless ARGV.length == 4
+        puts
         puts "arguments are: [inputfile].fasta [hmm-name] [min-length] [neg e-value exponent]"
+        puts
         exit
       end
 
-      pfam      = "/home/czmasek/DATA/PFAM/PFAM260/"
+      pfam      = "/home/czmasek/DATA/PFAM/PFAM260X/"
       hmmscan   = "/home/czmasek/SOFTWARE/HMMER/hmmer-3.0/src/hmmscan"
       hmmsearch = "/home/czmasek/SOFTWARE/HMMER/hmmer-3.0/src/hmmsearch"
       hsp       = "/home/czmasek/SOFTWARE/FORESTER/DEV/forester/forester/ruby/evoruby/exe/hsp.rb"