Where does pip install the scripts/

[tseemann]

Looking for https://poppunk.readthedocs.io/en/latest/scripts.html

Does pip3 install poppunk install these somewhere?

[johnlees]

Hi Torsten,

Sorry for the slow reply. No, I haven't set up either pip or conda to install the scripts as of the current version.
In the next release I'll update the installers to include them, but for now to get them you'll have to clone the repository.

Cheers,
John

[tseemann]

Colleagues were doing the tutorial etc and came up against this roadblock.
Thanks for replying,.

[johnlees]

These have now been added (I hope) and documented on the scripts page: https://poppunk.readthedocs.io/en/latest/scripts.html

[tseemann]

Any chance they will be added to the pip manifest so they end up in bin/ folder?
And maybe rename them to have prefix poppunk-_______ ?

[johnlees]

I believe that's exactly what I did in 7677d72 and 83b1a62. If this isn't working correctly let me know, or feel free to make a PR to fix it

[tseemann]

Ok - they are there now - thank you!

poppunk                            poppunk_extract_distances.py
poppunk_calculate_rand_indices.py  poppunk_prune
poppunk_calculate_silhouette.py    poppunk_references
poppunk_extract_components.py      poppunk_tsne

 $ poppunk --version
PopPUNK 1.2.2

[johnlees]

Hoping that conda automatically picks these up with its version bump too!