updated environment file

[matt-long]

This PR includes additional packages that are likely to be useful in analysis.

While I appreciate the effort to delineate dependencies into categories, I find that in practice it's much easier to simply have an alphabetized list; this enable determining at a glance whether a particular package is included or not.

@andersy005, can you please review to make sure we're not missing anything essential or if we might need to pin any versions.

[matt-long]

@mnlevy1981, black is complaining here about files I did not touch.

[mnlevy1981]

@mnlevy1981, black is complaining here about files I did not touch.

I think black recently released v20, and it has slightly different expectations than v19... I ran into something similar in pop-tools; thanks for the heads up, I'll get it fixed on master

[andersy005]

I think black recently released v20, and it has slightly different expectations than v19... I ran into something similar in pop-tools; thanks for the heads up, I'll get it fixed on master

To keep everything in sync, we could replace the existing black GitHub action with the pre-commit hook check GitHub action. This guarantees that the settings and versions used by pre-commit hooks are the same as the ones used in the CI:

linting.yaml:

name: linting

on:
  push:
    branches: '*'
  pull_request:
    branches: '*'

jobs:
  linting:
    runs-on: ubuntu-latest
    steps:
      - uses: actions/checkout@v2
      - uses: actions/setup-python@v2
      - uses: pre-commit/action@v2.0.0

It makes sense to add the above changes to #17.

[klindsay28]

Looks good to me.

I think it would be helpful to have done this is 2 commits, one with the rearranging the dependencies and another with adding dependencies. That would have made it easier to see that nothing was removed.

[matt-long]

That's a good point.

@mnlevy1981, I'll let you merge when you're ready.