diff --git a/.github/workflows/main.yml b/.github/workflows/main.yml index 575e971..80b8808 100644 --- a/.github/workflows/main.yml +++ b/.github/workflows/main.yml @@ -1,5 +1,5 @@ name: redbiom CI - + on: pull_request: push: @@ -14,11 +14,11 @@ jobs: # based roughly on https://github.com/conda-incubator/setup-miniconda#example-1-basic-usage # via biocore/empress python-version: ["3.6", "3.7", "3.8", "3.9"] - + steps: - name: Check out repository code uses: actions/checkout@v2 - + - name: Setup for conda uses: conda-incubator/setup-miniconda@v2 with: @@ -30,9 +30,9 @@ jobs: run: | conda create --yes -n test-env python=${{ matrix.python-version }} requests pandas click redis h5py nose conda activate test-env - conda install -c conda-forge --yes scikit-bio - pip install flake8 nltk biom-format msgpack - pip install -e . --no-deps + conda install -c conda-forge --yes scikit-bio biom-format + pip install flake8 nltk msgpack + pip install -e . --no-deps - name: Webdis install shell: bash -l {0} @@ -47,14 +47,14 @@ jobs: shell: bash -l {0} run: | conda activate test-env - + redis-server --daemonize yes - + pwd pushd webdis ./webdis & popd - + alias md5=md5sum export REDBIOM_HOST=http://127.0.0.1:7379 redbiom summarize contexts # will return a nonzero exit status if it cannot communicate with the default host