Switch to using neo4j to load Nodes table

[dhimmel]

Closes https://github.com/greenelab/hetmech-backend/issues/36

Work in progress: must test locally

[dhimmel]

Database import succeeded locally based on https://github.com/greenelab/hetmech-backend/pull/40/commits/5dcfc8bde69dd9263d05e78d179ab814687b8cb3:

python manage.py populate_database --max-metapath-length=3  --reduced-metapaths --batch-size=12000

_download_hetionet_hetmat(self=<dj_hetmech_app.management.commands.populate_database.Command object at 0x7f3dc0381cf8>) ran in 0:00:00
_populate_metanode_table() ran in 0:00:00
_populate_node_table() ran in 0:00:10
_populate_metapath_table() ran in 0:00:00
_download_path_counts(length=1) ran in 0:00:00
_populate_degree_grouped_permutation_table(length=1) ran in 0:00:00
_download_path_counts(length=2) ran in 0:00:01
_populate_degree_grouped_permutation_table(length=2) ran in 0:00:04
_download_path_counts(length=3) ran in 0:00:07
_populate_degree_grouped_permutation_table(length=3) ran in 0:00:29
_populate_path_count_table() ran in 0:05:22

http://localhost:8000/v1/nodes/ also working for me locally

[dhimmel]

I'll comment here once I've reloaded the production database.

[dhimmel]

Database reloading is now complete:

python manage.py populate_database --max-metapath-length=3  --reduced-metapaths --batch-size=12000
python manage.py database_info

_download_hetionet_hetmat(self=<dj_hetmech_app.management.commands.populate_database.Command object at 0x7ff8757dad30>) ran in 0:00:00
_populate_metanode_table() ran in 0:00:00
_populate_node_table() ran in 0:00:09
_populate_metapath_table() ran in 0:00:00
_download_path_counts(length=1) ran in 0:00:00
_populate_degree_grouped_permutation_table(length=1) ran in 0:00:00
_download_path_counts(length=2) ran in 0:00:00
_populate_degree_grouped_permutation_table(length=2) ran in 0:00:04
_download_path_counts(length=3) ran in 0:00:00
_populate_degree_grouped_permutation_table(length=3) ran in 0:00:38
_populate_path_count_table() ran in 0:20:46