Skip to content
Snippets Groups Projects
Commit 3cd8c726 authored by not populated not populated's avatar not populated not populated
Browse files

Updated to use wget from Edinburgh Genomics

parent 0edd2635
No related branches found
No related tags found
1 merge request!3Ultra 2 SOP/doc updates
#!/bin/bash
#SBATCH --cpus-per-task=1
#SBATCH --mem=4GB
#SBATCH --time=24:00:00
#SBATCH --job-name=get_data
#SBATCH --output=get_data.%A_%a.out
#SBATCH --error=get_data.%A_%a.err
# setup the connection
PROJ_CONN="ftps://transfer.genomics.ed.ac.uk/${TOKEN}/."
echo ${PROJ_CONN}
## set up an EPCC folder for this project
#mkdir /home/u035/u035/shared/data/$PROJECT
#cd /home/u035/u035/shared/data/$PROJECT
cd /home/u035/u035/shared/data
# download the data
#wget -crnH --cut-dirs=1 -i - <<<'ftps://transfer.genomics.ed.ac.uk/${TOKEN}/.'
wget -crnH --cut-dirs=1 -i - <<<${PROJ_CONN}
# perform the md5_check
cd /home/u035/u035/shared/data/$PROJECT/raw_data
rm md5_check.txt 2> /dev/null
for DATE in 20*[0-9]
do
cd $DATE
md5sum --check md5sums.txt >> ../md5_check.txt
cd ..
done
0% Loading or .
You are about to add 0 people to the discussion. Proceed with caution.
Finish editing this message first!
Please register or to comment