A from-scratch rewrite of the Drug-Gene Interaction Database.

First, make sure you have all of the following installed:

• RVM -- choose the stable version
• PostgreSQL, either from here or here
• NPM/Node

Clone and enter the repository:

git clone https://github.com/dgidb/dgidb-v5
cd dgidb-v5

First, you may need to switch your Ruby version with RVM to match the version declared in the first few lines of the Gemfile. For example, to switch to version 3.0.4:

rvm install 3.0.4
rvm 3.0.4

From the repo root, enter the server subdirectory:

cd server

If RVM is properly installed, you should expect to encounter a warning message here:

RVM used your Gemfile for selecting Ruby, it is all fine - Heroku does that too,
you can ignore these warnings with 'rvm rvmrc warning ignore ./Gemfile'.
To ignore the warning for all files run 'rvm rvmrc warning ignore allGemfiles'.

Next, install Rails and other required gems with bundle:

bundle install

The server will need a running Postgres instance. Postgres start commands may vary based on your OS and processor type. The following should work on M1 Macs:

pg_ctl -D /opt/homebrew/var/postgres start
# on older macs you may need to use a different path instead, eg "pg_ctl -D /usr/local/var/postgres start"

Database initialization utilities are in-progress, so for now, the easiest way to get a working database is to manually create it using the psql command. First, enter the psql console:

psql -d postgres  # if you are opening psql for the first time, you'll need to connect to the database 'postgres'
# should produce a prompt like the following:
# psql (14.2)
# Type "help" for help.
#
# jss009=#

Within the psql console, create the DGIdb database, then quit:

CREATE DATABASE dgidb;
\q

Next, back in the main shell, import a database dump file (ask on Slack if you need the latest file):

psql -d dgidb -f dgidb_dump_20220526.psql  # provide path to data dump

That should take a few minutes. Finally, start the Rails server:

rails s

Navigate to localhost:3000/api/graphiql in your browser. If the example query provided runs successfully, then you're all set.

Navigate to the /client directory:

# from dgidb-v5 root
cd client

Install dependencies with yarn:

yarn install

Start the client:

yarn start