User interface for evidence synthesis based on the gemtc R package and Patavi
Init and update the scss from the drugis main project
git submodule init
git submodule update
Compile the scss to css using compass
compass compile
Use bower to install the front-end dependencies
bower install
Use npm to install the back-end dependencies
npm install
Use psql to create the db to store data
CREATE USER gemtc WITH PASSWORD 'develop';
CREATE DATABASE gemtc ENCODING 'utf-8' OWNER gemtc;
Create a .pgpass in the user home to store the database password the file should contain a line with the following format hostname:port:database:username:password
localhost:5432:gemtc:gemtc:develop
Create the schema
for i in create-database-changeset-*.sql; do psql -h localhost -U gemtc -d gemtc -f $i; done
Setup environment variables
export GEMTC_GOOGLE_KEY=100331616436-dgi00c0mjg8tbc06psuhluf9a2lo6c3i.apps.googleusercontent.com
export GEMTC_GOOGLE_SECRET=9ROcvzLDuRbITbqj-m-W5C0I
export DB_HOST=localhost
export GEMTC_DB=gemtc
export GEMTC_DB_USERNAME=gemtc
export GEMTC_DB_PASSWORD=develop
export GEMTC_HOST=http://localhost:3001
export PATAVI_HOST=localhost
export PATAVI_PORT=3000
export PATAVI_CLIENT_KEY=path-to/app-env-key.pem
export PATAVI_CLIENT_CRT=path-to/app-env-crt.pem
export PATAVI_CA=path-to/provider-name.crt
First, build the R base dependencies for the gemtc worker:
in the R/r-base directory
docker build --tag gemtc/r-base-amqp .
Then, build the worker itself, in the R directory:
docker build --tag patavi/worker-amqp-gemtc .
Run the worker:
docker run -d --link <rabbitmq-container-name>:rabbit --name amqp-gemtc patavi/worker-amqp-gemtc
node gemtc
now visit the app at http://localhost:3001
sudo npm install -g forever
forever gemtc.js
The Angular app is tested by karma:
karma start karna-conf.js
The node backend is tested by mocha:
To install mocha globally:
npm install -g mocha
To run nodebackend unit tests:
mocha
To run nightwatch integration tests:
set env variable GEMTC_NIGHTWATCH_URL ( b.v. $GEMTC_HOST)
sudo npm install -g nightwatch
cd test/integration
wget http://selenium-release.storage.googleapis.com/2.45/selenium-server-standalone-2.45.0.jar
node gemtc &
nightwatch --config nightwatch-local.json