#!/bin/bash  

# define resource
resource=llm_biomarkers 

# add the time stamped folder
cd /data/projects/glygen/downloads/$resource/

new_dir=$(date +%Y_%m_%d)
mkdir $new_dir

# download files to new folder
cd /data/projects/glygen/downloads/$resource/$new_dir

curl -O  https://github.com/clinical-biomarkers/carbocurator-data/archive/refs/heads/main.zip
sleep 5 
curl -O  https://github.com/clinical-biomarkers/bGSL-data/archive/refs/heads/main.zip

echo "Unzipping export..."
unzip main.zip

# move export folder to downloads, delete unused PyGly directory
mv PyGly-GlyGen-GlycanData-Export-Current/smw/glycandata/export/ /data/shared/glygen/downloads/$resource/$new_dir/


# update new folder permissions
chmod -R 775 /data/shared/glygen/downloads/$resource/$new_dir/

# create symbolic link
cd /data/projects/glygen/downloads/$resource/
rm current
ln -s $new_dir current

echo "Download Complete"