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tskit-dev / tutorials

A set of tutorials for msprime and tskit.
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Update requirements for numpy 2 #276

Closed hyanwong closed 4 months ago

hyanwong commented 4 months ago

This won't work until scikit-allel is numpy 2.0 compatible. See https://github.com/cggh/scikit-allel/issues/415

Also note that the tszip docs are linked to the latest not stable version. See https://github.com/tskit-dev/tszip/issues/67#issuecomment-2222477153

hyanwong commented 4 months ago

There's also something weird going on with the R interface here, although it's all compiling locally for me. Something in the R setup could possibly do with changing. This could require some fiddling.

benjeffery commented 4 months ago

I've made a start on the scikit-allel, but one of the tests is failing and I don't get why: https://github.com/cggh/scikit-allel/pull/416

hyanwong commented 4 months ago

I pinned to the latest non v2 version of numpy, and it all seems to work, so I think we can just merge this and unpin numpy when scikit-allel is updated.

jeromekelleher commented 4 months ago

SGTM