V2.1.0

callahantiff released this 13 Apr 21:34

· 210 commits to master since this release

5d77b72

Release: v2.1.0

Website: https://github.com/callahantiff/PheKnowLator/wiki/v2.0.0
Data Access: Archived Builds
Docker Container: DockerHub Dedicated Project Container
PyPI: pkt-kg 2.1.0

New Jupyter Notebooks:

Updates

Parallelize edge_list.py, knowledge_graph.py, and owlnets.py using ray
Moderate updates to the logic for how non-ontology data are added to the merged set of base ontologies. Please see the resources/consrtuction_approach/README.md for additional details and updated examples.
New functionality added for splitting the logical core of a graph from its annotation assertions.
Changed the output files: no longer generating .owl files.
Cleaned up OWL-NETS helper functions and modified the logic for filtering OWL-specific annotations and axioms. Also added logic to enforce that the OWL-NETS graphs are all a single connected component.
Added more extensive statistics to logging and which print during the run-time.
Adding arguments for progress/logging verbosity.
New method added for better load balancing when input into Ray

Performance Stats used in Testing

GCP Instance:

Machine Type: custom (24 vCPU, 500 GB memory)
CPU Platform: Intel Haswell
Image OS: Debian, Debian GNU/Linux, 10 (buster), amd64 built on 20210217
Boot Disc: Balanced persistent disk (150 GB)

Graph Build Statistics:

Maximum Memory Use (GiB):

Runtime (minutes):

Assets 2