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WIP: fix weird failing gather #4243

WIP: fix weird failing gather

WIP: fix weird failing gather #4243

Workflow file for this run

name: "Dev env instructions"
on:
pull_request:
push:
branches: [latest]
jobs:
nix:
runs-on: ubuntu-latest
steps:
- uses: actions/checkout@v4
with:
fetch-depth: 0
- uses: cachix/install-nix-action@v23
with:
extra_nix_config: |
access-tokens = github.com=${{ secrets.GITHUB_TOKEN }}
- uses: cachix/cachix-action@v12
with:
name: sourmash-bio
authToken: '${{ secrets.CACHIX_AUTH_TOKEN }}'
- run: nix run .# -- --version
- run: nix-shell --command "tox -e py310"
mamba:
runs-on: ubuntu-latest
steps:
- uses: actions/checkout@v4
with:
fetch-depth: 0
- name: cache conda
uses: actions/cache@v3
env:
CACHE_NUMBER: 0
with:
path: ~/conda_pkgs_dir
key:
${{ runner.os }}-conda-${{ env.CACHE_NUMBER }}-${{ hashFiles('environment.yml') }}
- name: setup conda
uses: conda-incubator/setup-miniconda@3b0f2504dd76ef23b6d31f291f4913fb60ab5ff3
with:
auto-update-conda: true
python-version: 3.9
channels: conda-forge,bioconda
miniforge-variant: Mambaforge
miniforge-version: latest
use-mamba: true
mamba-version: "*"
activate-environment: sourmash_dev
auto-activate-base: false
use-only-tar-bz2: true
- name: install dependencies
shell: bash -l {0}
run: mamba install 'tox>=3.27,<4' tox-conda rust git compilers pandoc
- name: run tests for 3.9
shell: bash -l {0}
run: tox -e py39