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Daily Component Tests and Migrations #885

Daily Component Tests and Migrations

Daily Component Tests and Migrations #885

name: Daily Component Tests and Migrations
on:
schedule:
- cron: "0 9 * * *"
jobs:
build:
name: Daily Component Tests (Python ${{ matrix.python-version }})
runs-on: ubuntu-latest
strategy:
matrix:
python-version: ["3.10"]
fail-fast: false
steps:
- uses: actions/checkout@v4
- uses: conda-incubator/setup-miniconda@v3
with:
miniconda-version: 'latest'
auto-update-conda: true
activate-environment: anvio_env
environment-file: .conda/environment.yaml
python-version: ${{ matrix.python-version }}
- name: "Conda environment summary"
shell: bash -l {0}
run: |
conda info
conda list
- uses: actions/checkout@v4
- name: "Install anvi'o from the codebase"
shell: bash -l {0}
run: |
pip install .
- name: "Run component tests"
shell: bash -l {0}
run: |
anvi-self-test --suite metagenomics-full --no-interactive
anvi-self-test --suite pangenomics --no-interactive
anvi-self-test --suite inversions --no-interactive
# the following steps cause our actions to fail on GitHub runners
# due to space limitations :/ please do not uncomment this until we
# have a solution for this :/
#- name: "Run component tests for metabolism framework"
# shell: bash -l {0}
# run: |
# anvi-self-test --suite metabolism --no-interactive
#- name: "Migrate ancient anvi'o databases"
# shell: bash -l {0}
# run: |
# anvi-self-test --suite database-migrations