search

typedb / biograkn

BioGrakn Knowledge Graph
https://blog.grakn.ai/biograkn-accelerating-biomedical-knowledge-discovery-with-a-grakn-knowledge-graph-84706768d7d4
181 stars 52 forks source link

Data files not available in `diseasenetwork' and `precisionmedicine`. #82

Open adiv5 opened 4 years ago

adiv5 commented 4 years ago

Description

I am trying to run migrate.py in diseasenetwork/migrate and i am getting the following error

Traceback (most recent call last):
  File "migrate.py", line 41, in <module>
    data['protein-name'] = i[3]
IndexError: list index out of range

So i inspected the concerned csv files and found that all of them have some git-lfs message inside it similar to the following

version https://git-lfs.github.com/spec/v1
oid sha256:dd0a985f3547fa96f5a2e85f971d04a77e656324529e4a62baf3bb967c2a09da
size 3399920

The data is not proper, or I have missed something here. hence can't get it to work.

Environment

  1. OS (where Grakn server runs): Ubuntu 18.04
  2. Grakn version (and platform): grakn core 1.5.7
  3. Other environment details:

Reproducible Steps

Steps to create the smallest reproducible scenario:

  1. load the schema in keyspace
  2. go to diseasenetwork/migrate
  3. run migrate.py
  4. Get error like 
    
File "migrate.py", line 41, in <module>
data['protein-name'] = i[3]
IndexError: list index out of range