#!/bin/bash

# Detectar quines proteines hi ha a la carpeta Llibreria

for proteines_fa in ./Llibreria/*.fa; do {

basename_fa='basename $proteines_fa'

proteina=${basename_fa%.fa}

proteines=$proteines" $proteina"

} done

# Fer el blast i classificar els hits.

echo $proteina

echo "" > resultats_blast.txt

for protein in $proteines; do {

patroalfa='cat ./Libreria/$protein.fa | egrep ^"<"'

patrobeta=${patroalfa#*>}

echo $patrobeta > temppatro

patro='cut -f 1 -d " " temppatro'

rm temppatro

blastall -p tblastn -e 1e-4 -i ./Llibreria/$protein.fa -d

/cursos/BI/genomes/project_2014/Chrysochloris_asiatica/genome.fa -o output_blast/$protein.fa -m 8

./hits.pl $protein < ./output_blast/$protein.fa >> resultats_blast.txt

} done