Download data from basespace
Find data and download it
The simple way
bs dataset list | grep XXX
#bsub -q big bs dataset download --id=ds.e9ac5c93c4da4e9291ef73227ac2d149 --extension=bam -o Exp118s1
Shortcut
Given a datset id, download the bam and untar it
dlbsds() {
# Download basespace dataset and pull out the bam
x=$RANDOM
bs dataset download "--id=$1" --extension=bam -o $x
tar xvzf "${x}.tar.gz"
rm "${x}.tar.gz"
rm *"${1}.json"
}