Skip to content
This repository has been archived by the owner on Mar 10, 2023. It is now read-only.

Use ripgrep to make per-cell fastqs #103

Merged
merged 7 commits into from
Oct 6, 2020
Merged

Conversation

olgabot
Copy link
Collaborator

@olgabot olgabot commented Oct 3, 2020

nf-core/kmermaid pull request

This PR may improve the experience of using the pipeline for getting per-cell fastqs by using ripgrep to filter the fastq file for per-cell fastqs, and let nextflow do the parallelization on a per-process basis.

PR checklist

  • This comment contains a description of changes (with reason)
  • If you've fixed a bug or added code that should be tested, add tests!
  • If necessary, also make a PR on the nf-core/kmermaid branch on the nf-core/test-datasets repo
  • Ensure the test suite passes (nextflow run . -profile test,docker).
  • Make sure your code lints (nf-core lint .).
  • Documentation in docs is updated
  • CHANGELOG.md is updated
  • README.md is updated

Learn more about contributing: CONTRIBUTING.md

@olgabot olgabot mentioned this pull request Oct 3, 2020
8 tasks
@olgabot olgabot force-pushed the olgabot/grep-per-cell-fastqs branch from 904bdbc to 1ba194e Compare October 3, 2020 03:36
@pranathivemuri
Copy link
Contributor

Linting issues.

@olgabot olgabot merged commit 06138ca into dev Oct 6, 2020
@ewels ewels deleted the olgabot/grep-per-cell-fastqs branch October 22, 2020 07:28
Sign up for free to subscribe to this conversation on GitHub. Already have an account? Sign in.
Labels
None yet
Projects
None yet
Development

Successfully merging this pull request may close these issues.

2 participants