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Update mock_snakemake #1345

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merged 3 commits into from
Oct 10, 2024
Merged

Update mock_snakemake #1345

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8f1a6b1
test: log env diff (#1338)
lkstrp Oct 1, 2024
dc6ea50
Update mock_snakemake
davide-f Oct 2, 2024
b4905e1
Merge branch 'remove-madd' into fix_mock
fneum Oct 10, 2024
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31 changes: 27 additions & 4 deletions .github/workflows/test.yaml
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Original file line number Diff line number Diff line change
Expand Up @@ -21,6 +21,7 @@ concurrency:

env:
ENV_FILE: envs/environment.yaml
ENV_FIXED_FILE: envs/environment.fixed.yaml

jobs:
run-tests:
Expand Down Expand Up @@ -62,16 +63,39 @@ jobs:
uses: actions/cache@v4
with:
path: ${{ env.CONDA }}/envs
key: conda-${{ runner.os }}-${{ runner.arch }}-${{ env.today }}-${hashFiles('${{ env.ENV_FILE }}')}
key: conda-${{ runner.os }}-${{ runner.arch }}-${{ env.today }}-${{ hashFiles(format('{0}', env.ENV_FILE)) }}
id: cache-env

- name: Update environment
if: steps.cache-env.outputs.cache-hit != 'true'
run: conda env update -n pypsa-eur -f ${{ env.ENV_FILE }}

- name: Log env diff to environment.fixed.yaml
if: ${{ matrix.os == 'ubuntu' }}
run: |
# Get fixed environment of current env
conda env export --name ${{ github.event.repository.name }} --no-builds | sed 's/^name: ${{ github.event.repository.name }}$/name: ${{ github.event.repository.name }}-fixed/' > current-env.yaml

# Add SPDX header
SPDX_HEADER="# SPDX-FileCopyrightText: : 2017-2024 The PyPSA-Eur Authors\n# SPDX-License-Identifier: CC0-1.0\n"
echo -e "$SPDX_HEADER" | cat - current-env.yaml > temp && mv temp current-env.yaml

# Format with pre-commit (it differs from the conda output)
pip install pre-commit
pre-commit run --files current-env.yaml || true

# Get diff
diff ${{ env.ENV_FIXED_FILE }} current-env.yaml > diff.txt || true

# Format
{ echo -e "**Environment diff**\n\`\`\` diff\n"; cat diff.txt; echo -e "\n\`\`\`"; } > temp && mv temp diff.txt

# Write to summary
cat diff.txt >> $GITHUB_STEP_SUMMARY
shell: bash

- name: Run snakemake test workflows
run: |
conda activate pypsa-eur
make test

- name: Upload artifacts
Expand Down Expand Up @@ -137,7 +161,7 @@ jobs:
uses: actions/cache@v4
with:
path: ${{ env.CONDA }}/envs
key: conda-${{ runner.os }}-${{ runner.arch }}-${{ matrix.inhouse }}-${{ env.today }}-${hashFiles('${{ env.ENV_FILE }}')}
key: conda-${{ runner.os }}-${{ runner.arch }}-${{ matrix.inhouse }}-${{ env.today }}-${{ hashFiles(format('{0}', env.ENV_FILE)) }}
id: cache-env

- name: Update environment
Expand All @@ -152,7 +176,6 @@ jobs:
- name: Run snakemake test workflows
if: env.pinned == 'false'
run: |
conda activate pypsa-eur
make test

- name: Upload artifacts
Expand Down
2 changes: 1 addition & 1 deletion scripts/_helpers.py
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Expand Up @@ -434,7 +434,7 @@ def mock_snakemake(
import os

import snakemake as sm
from pypsa.descriptors import Dict
from pypsa.definitions.structures import Dict
from snakemake.api import Workflow
from snakemake.common import SNAKEFILE_CHOICES
from snakemake.script import Snakemake
Expand Down