forester/sh/x_msa_pro.sh

   1 re="(.+)_mafft_1000_l\.fasta"
   2 for i in *
   3 do
   4     if test -f "$i"
   5     then
   6         if [[ $i =~ $re ]]
   7         then
   8             name=${BASH_REMATCH[1]}
   9             echo $name
  10             ruby /home/zma/git/forester/forester/ruby/evoruby/exe/msa_pro.rb -i=f -o=p -d -c -rr=0.5 -rsl=20 $i ${name}_mafft_1000_l_05_20
  11             rc=$?
  12             if [[ $rc != 0 ]]
  13             then
  14                 exit $rc
  15             fi
  16         fi
  17     fi
  18 done