Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Increase performance of fetching via sra-tools #504

Merged
merged 1 commit into from
Nov 19, 2023

Conversation

padix-key
Copy link
Member

This PR increases the performance of biotite.application.sra:

  • prefetch is called before fasterq_dump, as suggested here.
  • FastaDumpApp is added, which decreases computation time by writing as FASTA instead of a FASTQ file, which omits the scores.

@padix-key padix-key merged commit bacc352 into biotite-dev:master Nov 19, 2023
17 checks passed
@padix-key padix-key deleted the application branch November 26, 2023 13:30
padix-key added a commit that referenced this pull request Dec 1, 2023
Amend:  Increase performance of fetching via sra-tools (#504)
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Labels
None yet
Projects
None yet
Development

Successfully merging this pull request may close these issues.

1 participant