Skip to content
GitLab
Projects Groups Snippets
  • /
  • Help
    • Help
    • Support
    • Community forum
    • Submit feedback
  • Sign in
  • models models
  • Project information
    • Project information
    • Activity
    • Labels
    • Members
  • Repository
    • Repository
    • Files
    • Commits
    • Branches
    • Tags
    • Contributors
    • Graph
    • Compare
    • Locked Files
  • Issues 7
    • Issues 7
    • List
    • Boards
    • Service Desk
    • Milestones
    • Iterations
    • Requirements
  • Merge requests 1
    • Merge requests 1
  • CI/CD
    • CI/CD
    • Pipelines
    • Jobs
    • Schedules
    • Test Cases
  • Deployments
    • Deployments
    • Environments
    • Releases
  • Packages and registries
    • Packages and registries
    • Package Registry
    • Container Registry
    • Infrastructure Registry
  • Monitor
    • Monitor
    • Incidents
  • Analytics
    • Analytics
    • Value stream
    • CI/CD
    • Code review
    • Insights
    • Issue
    • Repository
  • Wiki
    • Wiki
  • External wiki
    • External wiki
  • Snippets
    • Snippets
  • Activity
  • Graph
  • Create a new issue
  • Jobs
  • Commits
  • Issue Boards
Collapse sidebar
  • COVID-19
  • modelsmodels
  • Merge requests
  • !308

Add missing groundings from Gilda

  • Review changes

  • Download
  • Email patches
  • Plain diff
Open Benjamin M. Gyori requested to merge grounding into master Aug 03, 2021
  • Overview 0
  • Commits 1
  • Pipelines 7
  • Changes 22

For downstream use of these models, having identifiers associated with each entity is important but several species are missing these identifier annotations. I wrote a script to process all the _stable.xml files in this repo and find species that are missing identifiers. I used Gilda (https://github.com/indralab/gilda) to find an appropriate grounding for these species based on their string name, and if found, add this automatically to the xml, and then re-serialize it to be able to PR the changes. In total, 423 groundings are added.

Assignee
Assign to
Reviewers
Request review from
Time tracking
Source branch: grounding