data_MaSyMos

MaSyMos Dataloader for Covidgraph

Loads a subset of the data of https://sems.bio.informatik.uni-rostock.de/projects/masymos/index.html into Covidgraph

Part of the Covidgraph pipeline: https://github.com/covidgraph/motherlode

MaSyMoS is short for "Management System for Models and Simulations". It contains computational models in SBML and CellML format, simulation descriptions in SED-ML format and bio-ontologies. For a more detailed description see https://pubmed.ncbi.nlm.nih.gov/25754863/

Related Blog Post

https://healthecco.org/healthecco/masymos/

Run

Requirements:

• Running Neo4j DB

Docker

todo!

Local

Requirements:

• Python3 installed with pip

pip install -r reqs.txt

Provide source file (not provided atm until clarified if its non confidential)

export SOURCE_FILE_URL=https://<URL-TO-SOURCEFILE>

Set DB connection:

export NEO4J='{"host":"localhost","port":7687,"user":"neo4j","password":"wurscht"}'

Start script

python3 ./dataloader/main.py