fetchngs icon indicating copy to clipboard operation
fetchngs copied to clipboard

Update module sratools prefetch

Open suhrig opened this issue 2 months ago • 3 comments

This PR fixes #285. Downloads using sratools often resulted in corrupt files, because the tool to check the file integrity, vdb-validate is not always reliable. This PR updates the module sratools/prefetch, which includes a fix which performs a manual MD5 sum check in cases where vdb-validate is unreliable.

PR checklist

  • [X] This comment contains a description of changes (with reason).
  • [ ] If you've fixed a bug or added code that should be tested, add tests!
  • [X] Make sure your code lints (nf-core lint).
  • [X] Ensure the test suite passes (nextflow run . -profile test,docker --outdir <OUTDIR>).
  • [X] Check for unexpected warnings in debug mode (nextflow run . -profile debug,test,docker --outdir <OUTDIR>).
  • [X] CHANGELOG.md is updated.

suhrig avatar Apr 08 '24 09:04 suhrig