Singularity.cytofpipe_v2_1

Bootstrap: shub
From: shub://UCL-BLIC/singularity_recipes:env


%runscript
echo "Hello from inside the cytofpipe container!"


%setup
mkdir ${SINGULARITY_ROOTFS}/cytofpipe_v2.1


%post
wget https://github.com/UCL-BLIC/cytofpipe/archive/v2.1.zip
unzip v2.1.zip 
cp -r cytofpipe-2.1/* /cytofpipe_v2.1/.

cd /cytofpipe_v2.1
chmod ga+rwX /cytofpipe_v2.1/*.pl
chmod -R ga+rwX /cytofpipe_v2.1/code/
chmod ga+rwX /cytofpipe_v2.1/code/*.sh
chmod ga+rwX /cytofpipe_v2.1/code/*.R


%environment
export LC_ALL=C
cytofpipeDir=/cytofpipe_v2.1
export cytofpipeDir
export PATH=/cytofpipe_v2.1:$PATH