Reactome dumps are in Neo4j 4 format. To use them with Neo4j 5 the Reactome database needs to be downloaded as a dump and converted:
- Following instructions are for CLI installation of Neo4j (Linux)
- Install any 5.* version of Neo4j (tested with neo4j-community-5.15.0)
- Download Reactome database dump from https://reactome.org/download/current/reactome.graphdb.dump
cd
to installation directory, all commands below from therecp <PATH OF DOWNLOADED DUMP> reactome.dump
(so the dump file is in the same directory, also the file is renamed because dots in the database name are not allowed)./bin/neo4j-admin database migrate --force-btree-indexes-to-range reactome
- Now there should be a new directory created under
data/databases
- Don't forget to add these lines in
conf/neo4j.conf
:
initial.dbms.default_database=reactome
db.recovery.fail_on_missing_files=false