Aptamer

Setup

macOS

brew install elixir node@10 yarn postgresql
npm install -g ember-cli

Development

The code is divided into separate backend and frontend packages.

The backend is written in Elixir / Phoenix and the frontend in Ember

They are run separately. When you do your development you are interacting with the ember webserver. Ember knows how to proxy the API requests over to elixir when needed.

When running in production we build all the ember code and bundle it with the backend release.

To get the code

mkdir -p ~/icts/aptamer
cd ~/icts/aptamer
# Or fork this and clone from your own
git clone git@github.uiowa.edu:cortman/aptamer-web.git web
git clone git@github.com:ui-icts/aptamer.git scripts

There are some other setup steps in the scripts repo.

For now, focus on the web.

cd web

To start the servers Note: After you run mix phoenix.server, you may be propmpted to allow the download (or run commands) of other dependencies. Go ahead and say yes to those prompts.

cd backend
mix phoenix.server
cd ..
yarn install
cd frontend
ember s --proxy http://localhost:4000

If you receiver this error

psql: FATAL:  role "postgres" does not exist

Try creating a user by running this command (replacing '9.6.4' with your version of postgres):

/usr/local/Cellar/postgresql/9.6.4/bin/createuser -s postgres
# Or if that doesn't fix it
brew cask install postgres

If you need to create a database for development you can

cd backend
mix ecto.create
mix ecto.migrate

Production

Database

createdb --lc-collate='en_US.utf8' \
  --lc-ctype='en_US.utf8' \
  --encoding='UTF8' \
  --template=template0 \
  --owner=aptamer \
  aptamer2

Habitat

I split install into two steps, you should probably look at the file before you pipe it into sudo

curl https://raw.githubusercontent.com/habitat-sh/habitat/master/components/hab/install.sh
cat install.sh | sudo bash

Once habitat is installed on the server you need to install two packages

sudo hab pkg install chrisortman/aptamer-scripts
sudo hab pkg install chrisortman/aptamer-web
sudo hab svc load chrisortman/aptamer-web --strategy at-once

The service can be configured by creating a configuration file like the one below

port = 4002
database_name = "aptamer_prod"
database_user = "postgres"
database_password = "postgres"
database_port = 5432
database_host = "localhost"

And then running

sudo hab config apply aptamer-web.default 1 mine.config

You must create the database before running the service.