jbloomlab / phydms

phylogenetic analyses informed by deep mutational scanning data
GNU General Public License v3.0
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Scipy deprecation warnings #37

Closed skhilton closed 4 years ago

skhilton commented 4 years ago

This PR changes many of the scipy calls to numpy calls. This is because in the future users will not be able to access numpy functions (such as ndarray) through the scipy api. Right now, the code throws a lot of deprecation warnings.

scipy is still a dependency because we do use scipy-specific functions.

Resolves #29