Skip to content

Use nextstrain/ingest#32

Merged
victorlin merged 4 commits intomasterfrom
victorlin/centralized-ingest-git-subrepo
Aug 21, 2023
Merged

Use nextstrain/ingest#32
victorlin merged 4 commits intomasterfrom
victorlin/centralized-ingest-git-subrepo

Conversation

@victorlin
Copy link
Copy Markdown
Member

@victorlin victorlin commented Aug 9, 2023

Description of proposed changes

Begin usage of centralized ingest scripts and add details on how to pull new updates from the central repo.

Related issue(s)

Based on #31.

Testing

  • Checks pass, though they don't test the changes here
  • Partial ingest workflow runs locally without errors (excluding S3 upload failures)
  • Post-merge: Run rebuild and make sure it is successful. One of the Auspice JSON files is s3://nextstrain-data/rsv_a_genome.json version ID NDzjv91Wg6_F.j1kX6pcFhDnBti81Ygt.

…/vendored

subrepo:
  subdir:   "ingest/vendored"
  merged:   "1eb8b30"
upstream:
  origin:   "https://github.com/nextstrain/ingest"
  branch:   "main"
  commit:   "1eb8b30"
git-subrepo:
  version:  "0.4.6"
  origin:   "https://github.com/ingydotnet/git-subrepo"
  commit:   "110b9eb"
The previous commit was created by the following command:

    git subrepo clone https://github.com/nextstrain/ingest ingest/vendored

Add a section in the README on how to use this directory in the future.
Comment thread ingest/workflow/snakemake_rules/upload.smk Outdated
Remove the copies in this repo and update references.
This workflow does not send messages to Slack, so use the --quiet option
to disable the centralized script's default behavior of sending Slack
messages.
@victorlin victorlin force-pushed the victorlin/centralized-ingest-git-subrepo branch from 0b475c9 to 9956d1f Compare August 10, 2023 03:06
Base automatically changed from victorlin/remove-unused to master August 18, 2023 23:10
@victorlin victorlin merged commit 534be6f into master Aug 21, 2023
@victorlin victorlin deleted the victorlin/centralized-ingest-git-subrepo branch August 21, 2023 16:54
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment

Labels

None yet

Projects

No open projects

Development

Successfully merging this pull request may close these issues.

2 participants