#!/bin/bash

basedir=/sf/storage/gmo/hic/out/by_User/estsoi

#annotations
echo "downloading annotations..."
mkdir ${basedir}/annotations
rsync icg_cluster:/scratch/tsoies-DL/annotations_gff/*gff ${basedir}/annotations

#genomes
echo "downloading genomes..."
mkdir ${basedir}/genomes
rsync icg_cluster:/datasets/tsoies-DL/genomes/* ${basedir}/genomes

#bam normal M
echo "downloading noraml M bams..."
mkdir ${basedir}/bam_normalM
rsync icg_cluster:/scratch/tsoies-DL/lowM_analysis/out_highM/*bam* ${basedir}/bam_normalM

#bam low M
mkdir ${basedir}/bam_lowM
echo "downloading low M bams..."
rsync icg_cluster:/scratch/tsoies-DL/lowM_analysis/out/*bam* ${basedir}/bam_lowM

