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Update organism name normalisation function and apply more consistently - #1184

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pjbriggs merged 4 commits into
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qc-pipeline-update-organism-name-normalisation
Aug 11, 2026
Merged

pjbriggs merged 4 commits into
develfrom
qc-pipeline-update-organism-name-normalisation

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Two updates:

  1. Updates the organism name normalisation function normalise_organism_name in the utils module, to also remove non-alphanumeric characters (so e.g. C. elegans -> c_elegans)
  2. Use the normalise_organism_name function in the QC pipeline so that normalisation is applied more consistently within the auto-process package.

Update the 'normalise_organism_name' to convert all non-alphanumeric characters to underscores.
Explicitly call the 'normalise_organism_name' function to get a normalised name, for consistency with other code in the package.
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pjbriggs merged commit db7db56 into devel Aug 11, 2026
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pjbriggs deleted the qc-pipeline-update-organism-name-normalisation branch August 11, 2026 14:19
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