Issues when installing with `conda`

[jsquaredosquared]

In the readme, the suggested installation command is conda install -c bioconda -c conda-forge dysgu. However, this causes a LibMambaUnsatisfiableError due to incompatible packages.

Changing the command to conda install -c conda-forge -c bioconda dysgu solves this problem. This is because the conda-forge channel needs to have a higher priority because "bioconda heavily depends on the conda-forge channel" (source). Perhaps the readme should be updated to use this command instead?

Furthermore, I encountered an issue where running conda install -c conda-forge -c bioconda dysgu would install Dysgu successfully along with the latest version of NumPy, but then when running dysgu run it would throw the following error:

pkg_resources.ContextualVersionConflict: (numpy 2.1.1 (/[...]/lib/python3.12/site-packages), Requirement.parse('numpy<2'), {'dysgu'})

Perhaps the requirements need to be updated?

[kcleal]

Hi @jsquaredosquared, Thanks for pointing this out, I will get the docs updated. You right there is a mismatch in the numpy versions between conda package and the python package, I will have to fix those.