#!/bin/bash

src=$HOME/tutorial

#
# Sequencing the parents and first three progeny from the cross. 
#
process_radtags -p $src/raw/ -o $src/samples/ -b $src/barcodes -c -q -r
mv $src/samples/process_radtags.log $src/samples/nov_30_2010_lane1.log
mv $src/samples/sample_CGATA.fq     $src/samples/f0_male.fq
mv $src/samples/sample_GAAGC.fq     $src/samples/f0_female.fq
mv $src/samples/sample_TGACC.fq     $src/samples/progeny_01.fq
mv $src/samples/sample_AACCC.fq     $src/samples/progeny_02.fq
mv $src/samples/sample_ACTGC.fq     $src/samples/progeny_03.fq