InterMine Registry

InterMine Registry is a place where all the up-to-date instances information is stored and can be consumed by applications like Blue Genes, iOS, InterMine R, the friendly mine tool or available to everyone who needs it. The core of InterMine Registry is its RESTful API. Running over Node.js integrated with MongoDB, it contains methods (endpoints) to administer the instances on the registry (add, update & delete) and search among them. Furthermore, InterMine Registry also includes a nice fully responsive front-end web application, from which everyone can see all the InterMine instances and search among them.

GSoC 2017

InterMine registry was entirely implemented and developed as a GSoC 2017 program project by the student Leonardo Kuffo. Click here to find all of Leonardo's contributions for the project as evidence of his work.

Registry API

The core of the InterMine Registry App is the restFUL API. It contains endpoints to search and administer instances. These endpoints can be reached through the following base path: http://intermine.org/registry/service/

• POST /instances Add an instance to the registry.
• GET /instances Get all the instances from the registry.
• GET /instances/{instanceIdOrName} Get an instance by its ID or Name.
• PUT /instances/{instanceId} Update an instance.
• DELETE /instances/{instanceId} Deletes an instance.
• PUT /syncrhonize Update the branding & version information of every instance.
• PUT /syncrhonize/{instanceIdOrName} Update the branding & version information of the specified instance.

You can check the detailed API documentation for more information and testing.

Installation

1. Install Node.js on your host.

2. Install MongoDB on your host.

3. Clone this repository on your host:

git clone https://github.com/intermine/intermine-registry.git

4. From your terminal or CMD access to the registryapp directory an execute the following command:

npm install

5. Add MONGODB_URL to the system environment variables. Eg. For Linux,

export MONGODB_URL="<URL TO THE DATABASE>"

6. To run the application, being on the same directory:

npm start

In addition to running the application, this will also configure the MongoDB environment (database, collection & indexes). If you wish to populate the registry you may do (on another CMD or terminal) node initRegistry.js, which will initialize all the registry instances with basic information. This script is not part of the application, it must be run independently, and before you run it, the application must be running, because it makes use of the API endpoints. Since the script is independent of the application, you must define three variables before running it: a) Your application host b) Username in the DB c) Password of the entered username. (If the username and password are not present in the database (under the users collection), both should be added to the database before running this script.)

Configure the API Docs

The API-DOCS are generated based on the swagger.json file in the repository. In order for the API-DOCS to work correctly, on this file you have to specify the "HOST" and the "SCHEME" of the app (http or https).

Detailed Documentation

For more in-deep information about the code, and detailed guidelines on the project, please, visit the following link.