W5M1 update

[KellyLBennett]

Changes to sample_set and global changes outlined in issues #193 #199 #224.

Warning below also supressed.
/home/conda/developer/2835ffd46e5535e81e9672d0828c143d4f1444491ac44f0aeddd90156919e446-20240426-081151-481742-64-training-nb-maintenance-mgen-9.0.0/lib/python3.10/site-packages/malariagen_data/anoph/snp_frq.py:1203: FutureWarning: 'A' is deprecated and will be removed in a future version, please use 'Y' instead.
return pd.Period(freq="A", year=year)

Resolves #216

[ahernank]

Thanke @KellyLBennett, there seem to be a couple of broken images here; it might be good to identify & get these fixed too.

[KellyLBennett]

@ahernank It looks like the missing images are these (taken as screenshots from the video).

[KellyLBennett]

Do you know how to fix these images?

[KellyLBennett]

The URLs in the notebook.

img src="https://storage.googleapis.com/vo_agam_release/reference/training-images/workshop-5/itn_use.png" width="650"/

img src="https://storage.googleapis.com/vo_agam_release/reference/training-images/workshop-4/mosquito-genotype-array.png" width="650"/

[ahernank]

Thanks @KellyLBennett, here are the new URLs:

https://vobs-resources.cog.sanger.ac.uk/training/img/workshop-4/mosquito-genotype-array.png
https://vobs-resources.cog.sanger.ac.uk/training/img/workshop-5/itn_use.png

Let me know if you have any issues with these.

[ahernank]

Thanks @KellyLBennett. It seems that some of the URLs related to documentation are broken, e.g. https://malariaatlas.org/research-project/metrics-of-insecticide-treated-nets-distribution/ -- it would be great to update this (and any other, if there are) to reflect the current location of this data.

[ahernank]

Thanks, just noticed a small typo on the text below, so this matches with the xarray results:

Here we can see some of the coordinate values. E.g., the first column of grid squares corresponds to the longitude value -17.979.