MTBLS Python-based REST service

Branch: Master

Docker Hub: /mtblsws-py

Using

• ISA-API
• Flask
• Flask-RESTful
• flask-restful-swagger
• marshmallow
• Flask-CORS
• owlready2
• gunicorn
• mzml2isa
• gunicorn
• gevent
• psycopg2
• lxml
• jira
• pubchempy
• cirpy
• zeep
• pronto
• ctfile
• pyopenms
• gspread
• oauth2client
• gspread_dataframe
• gspread
• oauth2client
• plotly
• boto3
• pillow
• requests
• metaspace2020

Installing the required Python libraries

create a new virtual environment and simply execute "pip install -r requirements.txt"

See config.py for details of how to connect to a MetaboLights ISA-Tab database schema.

Using the REST service

To see what REST calls you can make and how to format your queries, have a look at the on-line Swagger UI API documentation. Start either the Flask server (for local development), or Gunicorn for a live environment.

Once your WS is up and running point a web browser to http://localhost:5000/metabolights/ws/api/spec.html.

Please note that some of the functionality will only work if this is running on EMBL-EBI MetaboLights infrastructure.

Please contact the MetaboLights Team at metabolights-help@ebi.ac.uk for further information.

Feedback

Please give us feedback, we are always looking at ways to improve MetaboLights.