#!/bin/bash

export PATH=/cursos/BI/bin/ncbiblast/bin:$PATH;
cp /cursos/BI/bin/ncbiblast/.ncbirc ~;
export PATH=/cursos/BI/bin/exonerate/i386/bin:$PATH;
export PATH=/cursos/BI/bin:$PATH;
export WISECONFIGDIR=/cursos/BI/soft/wise-2.2.0/wisecfg;
for genome in Thalassiosira_pseudonana Theileria_parva Trypanosoma_cruzi Theileria_annulata Phytophthora_sojae Phytophthora_ramorum Monosiga_brevicollis Giardia_intestinalis Entamoeba_terrapinae Entamoeba_histolytica Babesia_bovis; 
	do {
	blastdb=`grep $genome /cursos/BI/genomes/protists/genomes_list_and_info.tab | cut -f 4`;		         
	  blastall -p tblastn -i protmexicanatota.fa -d $blastdb -o protmexicana.CONTRA$genome.tblastn;
          }
	done