#!/bin/bash

#exports falten
export PATH=/cursos/BI/bin:$PATH                       # pel fastaseqfromGFF.pl
export PATH=/cursos/BI/bin/ncbiblast/bin:$PATH         # pel NCBI Blast
cp /cursos/BI/bin/ncbiblast/.ncbirc ~/                 # pel NCBI Blast 
export PATH=/cursos/BI/soft/exonerate/i386/bin:$PATH   # per l'exonerate
export PATH=/cursos/BI/soft/t_coffee/i386/bin:$PATH    # pel t_coffee
export PATH=/cursos/BI/soft/genewise/i386/bin:$PATH    # pel GeneWise
export WISECONFIGDIR=/cursos/BI/soft/genewise/i386/wise2.2.0/wisecfg/  #GeneWise


for fasta in *.fa
do
	echo "Ara processo el fitxer $fasta"
	cat $fasta | perl FindingSeCys.pl
	
done