Minerva 2 WPRDF Convertor

Get data at https://covid19map.elixir-luxembourg.org/minerva/ under Info, 'source file' as a zip file.

Unzip the content in a newly created data folder. After that, replace spaces in the filenames into underscores:

cd data/submaps
rename 's/\s/_/g' -- *.xml

Download the BridgeDb mapping file

Download Hs_Derby_Ensembl_91.bridge (or similar) and put it in this folder. Check the file name in the convert.groovy.

Easiest is just to use the Makefile:

make all.ttl

Example conversion:

groovy convert.groovy data/submaps/Apoptosis\ pathway.xml

The resulting Turtle can be validated with:

cat foo.ttl | rapper -i turtle -t -q - . > /dev/null

(Install rapper with apt install raptor2-utils on Debian/Ubuntu.)