Provide a way to automate local dev setup

reichlab / cladetime

Documentation

https://cladetime.readthedocs.io

MIT License

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Provide a way to automate local dev setup #9

Closed bsweger closed 1 month ago

bsweger commented 2 months ago

Background

Due to the external tools used in this package, there are some moving parts that make it tedious to set up a development environment.

For example, neither of these non-Python dependencies can be installed via pip:

the nextclade CLI
the dataformat CLI

Definition of done

[ ] There is an way to automate development setup

bsweger commented 2 months ago

Curious to hear @elray1's feedback on this. This package isn't something we're actively collaborating on with people outside of our org, and we already have it Dockerized.

For those reasons, I wouldn't consider this one a high priority, but putting it out there to see what people think.

bsweger commented 2 months ago

If we do end up using a script or makefile to do this, here's the incantation to install the nextclade CLI into the executable folder of the currently active Python venv:

curl -fsSL "https://github.com/nextstrain/nextclade/releases/latest/download/nextclade-x86_64-apple-darwin" -o "$VIRTUAL_ENV/bin/nextclade" && chmod +x $VIRTUAL_ENV/bin/nextclade

(a shortcut because the activated virtual env is already in the PATH)

bsweger commented 1 month ago

Closing this one because we Dockerized the setup a few months ago.