Skip to content
GitLab
Projects Groups Topics Snippets
  • /
  • Help
    • Help
    • Support
    • Community forum
    • Submit feedback
  • Sign in
  • E ensembl
  • Project information
    • Project information
    • Activity
    • Labels
    • Members
  • Repository
    • Repository
    • Files
    • Commits
    • Branches
    • Tags
    • Contributor statistics
    • Graph
    • Compare revisions
    • Locked files
  • Issues 0
    • Issues 0
    • List
    • Boards
    • Service Desk
    • Milestones
    • Iterations
    • Requirements
  • Jira
    • Jira
  • Merge requests 0
    • Merge requests 0
  • CI/CD
    • CI/CD
    • Pipelines
    • Jobs
    • Schedules
    • Test cases
  • Deployments
    • Deployments
    • Environments
    • Releases
  • Packages and registries
    • Packages and registries
    • Package Registry
    • Container Registry
    • Terraform modules
  • Monitor
    • Monitor
    • Incidents
  • Analytics
    • Analytics
    • Value stream
    • CI/CD
    • Code review
    • Insights
    • Issue
    • Repository
  • Wiki
    • Wiki
  • Snippets
    • Snippets
  • Activity
  • Graph
  • Create a new issue
  • Jobs
  • Commits
  • Issue Boards
Collapse sidebar
  • ensembl-gh-mirror
  • ensembl
  • Merge requests
  • !487

sars_cov_2 specific xref configuration

  • Review changes

  • Download
  • Patches
  • Plain diff
Merged Marek Szuba requested to merge feature/sars_cov_2_conf into master Jun 03, 2020
  • Overview 5
  • Commits 2
  • Pipelines 0
  • Changes 2

Created by: magaliruffier

Requirements

  • Filling out the template is required. Any pull request that does not include enough information to be reviewed in a timely manner may be closed at the maintainers' discretion;
  • Review the contributing guidelines for this repository; remember in particular:
    • do not modify code without testing for regression
    • provide simple unit tests to test the changes
    • if you change the schema you must patch the test databases as well, see Updating the schema
    • the PR must not fail unit testing

Description

Using one or more sentences, describe in detail the proposed changes. These configuration changes allow us to run the xref pipeline on the annotation for sars-cov-2

Use case

Describe the problem. Please provide an example representing the motivation behind the need for having these changes in place. this is a virus genome with different data sources to the usual vertebrate species the added configuration ensure we use the correct data for the virus annotation without affecting existing settings for vertebrate species

Benefits

If applicable, describe the advantages the changes will have. no changes required to existing pipeline to run on new virus genome

Possible Drawbacks

If applicable, describe any possible undesirable consequence of the changes.

Testing

Have you added/modified unit tests to test the changes? a full run of the pipeline was done with the changes

If so, do the tests pass/fail?

Have you run the entire test suite and no regression was detected? the data was reviewed manually and released as part of the COVID-19 browser

Assignee
Assign to
Reviewers
Request review from
Time tracking
Source branch: feature/sars_cov_2_conf