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I made some additional documentation comments on the flu A and B GISAID data pulls so I don't forget. Changes were made to two files in bin/aux/pulling-sequences on details related to the fasta header format. For reference the fasta header format used previously when downloading the flu A and flu B data was as follows:

Isolate ID | DNA Accession no. | Isolate name | Segment | Segment number

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 you've added a new tool - have you followed the pipeline conventions in the contribution docs
  • If necessary, also make a PR on the nf-core/refmaker branch on the nf-core/test-datasets repository.
  • Make sure your code lints (nf-core lint).
  • Ensure the test suite passes (nextflow run . -profile test,docker --outdir <OUTDIR>).
  • Usage Documentation in docs/usage.md is updated.
  • Output Documentation in docs/output.md is updated.
  • CHANGELOG.md is updated.
  • README.md is updated (including new tool citations and authors/contributors).

@DOH-PNT0303 DOH-PNT0303 requested a review from DOH-JDJ0303 June 17, 2025 21:41
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