pin bioimageio.spec again to 0.4.9.* #757
Workflow file for this run
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name: Test and Deploy bioimageio.core | |
on: | |
push: | |
branches: [ main ] | |
pull_request: | |
branches: [ "**" ] | |
defaults: | |
run: | |
shell: bash -l {0} | |
jobs: | |
black: | |
runs-on: ubuntu-latest | |
steps: | |
- uses: actions/checkout@v3 | |
- name: Check files using the black formatter | |
uses: rickstaa/action-black@v1 | |
id: action_black | |
with: | |
black_args: "." | |
- name: Annotate diff changes using reviewdog | |
if: steps.action_black.outputs.is_formatted == 'true' | |
uses: reviewdog/action-suggester@v1 | |
with: | |
tool_name: blackfmt | |
test-spec-conda: | |
runs-on: ubuntu-latest | |
strategy: | |
matrix: | |
python-version: [3.7, 3.8, 3.9] | |
steps: | |
- uses: actions/checkout@v3 | |
- name: Install Conda environment with Micromamba | |
uses: mamba-org/provision-with-micromamba@main | |
with: | |
cache-downloads: true | |
cache-env: true | |
environment-file: dev/environment-torch.yaml | |
extra-specs: | | |
python=${{ matrix.python-version }} | |
- name: additional setup | |
run: pip install --no-deps -e . | |
- name: pytest-spec-conda | |
run: pytest --disable-pytest-warnings | |
test-spec-main: | |
runs-on: ubuntu-latest | |
strategy: | |
matrix: | |
python-version: [3.7, 3.8, 3.9] | |
steps: | |
- uses: actions/checkout@v3 | |
- name: Install Conda environment with Micromamba | |
uses: mamba-org/provision-with-micromamba@main | |
with: | |
cache-downloads: true | |
cache-env: true | |
environment-file: dev/environment-torch.yaml | |
extra-specs: | | |
python=${{ matrix.python-version }} | |
- name: additional setup | |
run: | | |
conda remove --yes --force bioimageio.spec || true # allow failure for cached env | |
pip install --no-deps git+https://github.com/bioimage-io/spec-bioimage-io | |
pip install --no-deps -e . | |
- name: pytest-spec-main | |
run: pytest --disable-pytest-warnings | |
test-spec-tf: | |
runs-on: ubuntu-latest | |
strategy: | |
matrix: | |
python-version: [3.7, 3.8, 3.9] | |
steps: | |
- uses: actions/checkout@v3 | |
- name: Install Conda environment with Micromamba | |
uses: mamba-org/provision-with-micromamba@main | |
with: | |
cache-downloads: true | |
cache-env: true | |
environment-file: dev/environment-tf.yaml | |
channel-priority: flexible | |
extra-specs: | | |
python=${{ matrix.python-version }} | |
- name: additional setup | |
run: | | |
conda remove --yes --force bioimageio.spec || true # allow failure for cached env | |
pip install --no-deps git+https://github.com/bioimage-io/spec-bioimage-io | |
pip install --no-deps -e . | |
- name: pytest-spec-tf | |
run: pytest --disable-pytest-warnings | |
test-spec-tf-legacy: | |
runs-on: ubuntu-latest | |
strategy: | |
matrix: | |
python-version: [3.7] | |
steps: | |
- uses: actions/checkout@v3 | |
- name: Install Conda environment with Micromamba | |
uses: mamba-org/provision-with-micromamba@main | |
with: | |
cache-downloads: true | |
cache-env: true | |
environment-file: dev/environment-tf-legacy.yaml | |
channel-priority: flexible | |
extra-specs: | | |
python=${{ matrix.python-version }} | |
- name: additional setup | |
run: | | |
conda remove --yes --force bioimageio.spec || true # allow failure for cached env | |
pip install --no-deps git+https://github.com/bioimage-io/spec-bioimage-io | |
pip install --no-deps -e . | |
- name: pytest-spec-tf-legacy | |
run: pytest --disable-pytest-warnings | |
conda-build: | |
runs-on: ubuntu-latest | |
needs: test-spec-conda | |
steps: | |
- name: checkout | |
uses: actions/checkout@v3 | |
with: | |
fetch-depth: 0 | |
- name: Install Conda environment with Micromamba | |
uses: mamba-org/provision-with-micromamba@main | |
with: | |
cache-downloads: true | |
cache-env: true | |
environment-file: false | |
environment-name: build-env | |
channels: conda-forge | |
extra-specs: | | |
boa | |
- name: linux conda build | |
run: | | |
conda mambabuild -c conda-forge conda-recipe |