An example application that implements Taverna Player.
The easiest way to get the portal up and running is to use Docker.
First, set up a taverna server container:
docker run --name taverna -p 8080:8080 -d taverna/taverna-server
Then set up the portal container:
docker run --name taverna-portal --link taverna:taverna -p 3000:3000 -d fbacall/taverna-player-portal
Install required packages
sudo apt-get install sqlite libsqlite3-dev libxml2-dev libxslt1-dev libtool libmagickwand-dev graphviz ImageMagick ghostscript nodejs git
First, install RVM using the commands listed here: https://rvm.io/
Then run (you may need to restart your terminal first)
rvm install 2.2.2
git clone https://github.com/myGrid/taverna-player-portal.git
cd taverna-player-portal
gem install bundler
bundle install
cp config/initializers/taverna_server.rb.example config/initializers/taverna_server.rb
You will need to edit config/initializers/taverna_server.rb in your favourite text editor to include the location and credentials of the Taverna Server instance you wish to use.
bundle exec rake db:setup
bin/rails s
This will start the application at https://localhost:3000/
To start the DelayedJob worker, which handles asynchronous tasks such as polling Taverna Server, run the following in a seperate terminal window:
rake jobs:work
Note: remember to restart the worker to reflect any back-end code changes
The portal has a basic API (provided by Rails) for listing and uploading workflows.
The API uses HTTP Basic authentication, where the username is your email address, and the password is your password. Actions such as uploading a workflow require authentication. Other actions can be perform anonymously.
GET /workflows.json
GET /workflows/1.json
Where the ID of the workflow is 1
POST /workflows.json
Where the body of the POST is a JSON document, structured as follows:
{ "workflow" : { "document" : "data:application/octet-stream;base64,<<<workflow here>>>" } }
Where <<<workflow here>>> is a Base64 encoded T2Flow workflow.
Make sure to set the Content-Type of your request to application/json.
curl -u [email protected] -X POST -H "Content-Type: application/json" -d@my_post_body.json https://localhost:3000/workflows.json
The workflow run API is provided by Taverna Player, and is documented here: https://github.com/myGrid/taverna-player/wiki/JSON-API-Documentation