v 1.04

[jalview.git] / forester / ruby / scripts / preprocess.rb

diff --git a/forester/ruby/scripts/preprocess.rb b/forester/ruby/scripts/preprocess.rb
index 8829eb6..2cc1479 100644 (file)
--- a/forester/ruby/scripts/preprocess.rb
+++ b/forester/ruby/scripts/preprocess.rb
@@ -1,7 +1,7 @@
 #!/usr/local/bin/ruby -w
 
 
-if ( ARGV == nil || ARGV.length != 3 )
+if ( ARGV == nil || ARGV.length != 2 )
   puts( "usage: preprocess.rb <input> <path to Pfam A HMMs>" )         
   exit( -1 )
 end 
@@ -10,7 +10,7 @@ input = ARGV[ 0 ]
 
 pfam = ARGV[ 1 ]
 
-system( "hmmscan --nobias --domtblout " + input + "_hmmscan_260_10 -E 10 " + pfam +  " + input + ".ni.fasta" )
+system( "hmmscan --nobias --domtblout " + input + "_hmmscan_260_10 -E 10 " + pfam + " "  + input + ".ni.fasta" )
 
 system( "hsp " + input + "_hmmscan_260_10 " + input + "_hmmscan_260_10_domain_table" )