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tskit-dev / tsinfer

Infer a tree sequence from genetic variation data.
GNU General Public License v3.0
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Grep for "sgkit" in names and replace #934

Closed jeromekelleher closed 3 weeks ago

jeromekelleher commented 3 months ago

We're using "sgkit" in a few places where we mean the underlying VCF Zarr representation (e.g. sgkit_samples_mask_name in #917). Search for these and replace with something appropriate.

hyanwong commented 2 months ago

I believe that apart from in the test suite, the only places where the word "sgkit" is now exposed are here: https://github.com/tskit-dev/tsinfer/blob/738bd13d531cbb2188b5fefabc6fb2e5879e16a4/tsinfer/formats.py#L2297

and (trivially) here:

https://github.com/tskit-dev/tsinfer/blob/738bd13d531cbb2188b5fefabc6fb2e5879e16a4/tsinfer/formats.py#L2357

hyanwong commented 3 weeks ago

Fixed in #961