#!/bin/sh

#  0_preparation.sh
#  
#
#

### Log in to metacentrum ###

ssh user@skirit.ics.muni.cz

## your home directory on skirit front end is brno2/home/username/
##!!! IMPORTANT !!! If you logged in another  front end, the home directory will be different!

#check where you are
pwd

## create your own directory for data and results in the brno2/home/username/ - since we are already there, we operate inside

mkdir -p RNASeq/data/raw
mkdir -p RNASeq/scripts
mkdir -p RNASeq/results/qc

## copy example data to the data/raw
ls -l /storage/brno2/home/bartonv/E5444/RNASeq/data/raw/
cp /storage/brno2/home/bartonv/E5444/RNASeq/data/raw/*.fastq.gz RNASeq/data/raw/.


## open the script 01_initial_qc.sh
