diff --git a/.copier-answers.yml b/.copier-answers.yml index 289d09b..85fd300 100644 --- a/.copier-answers.yml +++ b/.copier-answers.yml @@ -1,13 +1,13 @@ # Changes here will be overwritten by Copier -# DO NOT MANUALLY MODIFY THIS FILE +# !!!!! DO NOT MANUALLY MODIFY THIS FILE !!!!! _commit: latest _src_path: https://github.com/calliope-project/data-module-template.git author_email: j.a.c.launer@tudelft.nl author_family_name: Launer author_given_name: Jann -github_org: calliope-project -license: MIT -module_description: This data module produces area potentials and capacity factors - for PV and wind at arbitrary spatial resolution. -module_long_name: 'PV and wind area potentials and capacity factors ' +github_org: modelblocks-org +license: Apache-2.0 +module_description: This data module produces capacity factors for PV and wind at + arbitrary spatial resolution. +module_long_name: PV and wind capacity factors module_short_name: module_pv_wind diff --git a/.github/ISSUE_TEMPLATE/bug_report.md b/.github/ISSUE_TEMPLATE/bug_report.md index cd94c32..1b66ddc 100644 --- a/.github/ISSUE_TEMPLATE/bug_report.md +++ b/.github/ISSUE_TEMPLATE/bug_report.md @@ -24,7 +24,7 @@ A clear and concise description of what you expected to happen. If applicable, add screenshots to help explain your problem. **Desktop (please complete the following information):** - - OS: [e.g. Linux Fedora 41, Windows 10...] + - OS: [e.g. Linux Fedora 43, Windows 11...] - Version [e.g. v0.1.1] **Additional context** diff --git a/.github/ISSUE_TEMPLATE/config.yaml b/.github/ISSUE_TEMPLATE/config.yaml new file mode 100644 index 0000000..28da94d --- /dev/null +++ b/.github/ISSUE_TEMPLATE/config.yaml @@ -0,0 +1,5 @@ +blank_issues_enabled: false +contact_links: + - name: General information + url: https://www.modelblocks.org/ + about: Please consult our website for general information on the Modelblocks methodology. diff --git a/.github/pull_request_template.md b/.github/pull_request_template.md index 9610b97..400a69f 100644 --- a/.github/pull_request_template.md +++ b/.github/pull_request_template.md @@ -8,6 +8,11 @@ Fixes # ## Reviewer checklist -* [ ] `INTERFACE.yaml` is up-to-date with all relevant user resources and results. -* [ ] The integration example is up-to-date with a minimal use-case of the module. -* [ ] Module documentation is up-to-date. +* [ ] There are no `pip` dependencies in the module's environment files (`workflow/envs/`). +* [ ] All rules use `pathvars` (e.g., ``) in their inputs and outputs. +* [ ] The integration test-suite is successful, including: + * [ ] `pre-commit.ci` tests pass. + * [ ] tests pass for all relevant OS configurations (linux, osx, windows). +* [ ] Module documentation is up-to-date, including: + * [ ] `INTERFACE.yaml` mentions all relevant `pathvars` and `wildcards`. + * [ ] `README.md` describes how to use the module and has the necessary citations. diff --git a/.github/workflows/check-version.yml b/.github/workflows/check-version.yml index 8e57b32..7bde778 100644 --- a/.github/workflows/check-version.yml +++ b/.github/workflows/check-version.yml @@ -1,9 +1,13 @@ # Check for changes in the upstream template. If changes are found, an issue is created name: Template check. on: + workflow_dispatch: schedule: - cron: '0 0 1 * *' # Runs at 00:00 UTC on the 1st day of every month jobs: copier-update: - uses: calliope-project/data-module-template/.github/workflows/template-check-version.yml@latest + permissions: + contents: read + issues: write + uses: modelblocks-org/data-module-template/.github/workflows/template-check-version.yml@latest diff --git a/.github/workflows/pr-ci.yml b/.github/workflows/pr-ci.yml index a216bf5..0e17ea4 100644 --- a/.github/workflows/pr-ci.yml +++ b/.github/workflows/pr-ci.yml @@ -1,9 +1,41 @@ -name: CI +# !!!!! DO NOT MODIFY UNLESS ABSOLUTELY NECESSARY !!!!! +# This workflow helps standardise integration tests across data modules +name: Pull Request CI tests for Modelblocks data modules on: pull_request: branches: - "main" - jobs: - ci-tests: - uses: calliope-project/data-module-template/.github/workflows/template-pr-ci.yml@latest + build: + name: Build + runs-on: ${{ matrix.os }} + strategy: + fail-fast: false + matrix: + os: [ubuntu-latest, windows-latest, macos-latest] + python-version: ["3.12"] + steps: + - uses: actions/checkout@v4 + - name: Setup pixi + uses: prefix-dev/setup-pixi@v0.8.3 + - name: Run integration tests + id: tests + run: pixi run test-integration + continue-on-error: true + - name: Run snakemake linting + id: linting + run: | + pixi run snakemake --lint --snakefile workflow/Snakefile + pixi run snakemake --lint --snakefile tests/integration/Snakefile + continue-on-error: true + - name: Save integration logs + if: ${{ always() }} + uses: actions/upload-artifact@v4 + with: + name: integration-test-logs-${{ matrix.os }} + path: tests/integration/resources/module/logs + if-no-files-found: ignore + retention-days: 30 + - name: Fail if integration or linting failed + if: ${{ steps.tests.outcome == 'failure' || steps.linting.outcome == 'failure' }} + run: exit 1 diff --git a/.github/workflows/release.yml b/.github/workflows/release.yml index 32ab6f2..7e25226 100644 --- a/.github/workflows/release.yml +++ b/.github/workflows/release.yml @@ -6,4 +6,6 @@ on: jobs: release-workflow: - uses: calliope-project/data-module-template/.github/workflows/template-release.yml@latest + permissions: + contents: write + uses: modelblocks-org/data-module-template/.github/workflows/template-release.yml@latest diff --git a/.gitignore b/.gitignore index 21787f0..f03928b 100644 --- a/.gitignore +++ b/.gitignore @@ -11,6 +11,9 @@ __pycache__ *.pyc +### Environments +.pixi/ + ### Snakemake .snakemake/ gurobi.log diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml index c29fc99..ee59aa3 100644 --- a/.pre-commit-config.yaml +++ b/.pre-commit-config.yaml @@ -12,6 +12,7 @@ repos: # Repo quality - id: check-added-large-files args: [--enforce-all] + exclude: ^pixi\.lock$ - id: forbid-submodules - id: check-case-conflict - id: check-illegal-windows-names @@ -44,4 +45,4 @@ repos: files: .*\.(py|smk|md)$|^Snakefile$ ci: # https://pre-commit.ci/ - autoupdate_schedule: monthly + autoupdate_schedule: quarterly diff --git a/.readthedocs.yaml b/.readthedocs.yaml deleted file mode 100644 index 0480acd..0000000 --- a/.readthedocs.yaml +++ /dev/null @@ -1,19 +0,0 @@ -# Read the Docs configuration file -# See https://docs.readthedocs.io/en/stable/config-file/v2.html for details -version: 2 - -build: - os: ubuntu-22.04 - tools: - python: "3.12" - jobs: - install: - - asdf plugin add pixi - - asdf install pixi latest - - asdf global pixi latest - build: - html: - - pixi run build-docs -d $READTHEDOCS_OUTPUT/html - -mkdocs: - configuration: mkdocs.yaml diff --git a/INTERFACE.yaml b/INTERFACE.yaml index 72104d4..adc0414 100644 --- a/INTERFACE.yaml +++ b/INTERFACE.yaml @@ -1,20 +1,37 @@ # Module Input-Output structure for automated doc. generation -resources: - user: - user_message.md: "Example file emulating external files requested from a user." - automatic: - dummy_readme.md: "Example file emulating downloads determined by internal settings." -results: - combined_text.md: "Example file emulating module results." - -# Wildcard example: -# resources: -# user: -# shapes_{resolution}.geojson: region geometries. -# automatic: -# technology_data.parquet: dataset with technology characteristics. -# results: -# '{resolution}/tech_capacity.parquet': description of output data. -# '{resolution}/results_image.png': description of output image. -# wildcards: -# resolution: description of the wildcard’s purpose. +pathvars: + snakemake_defaults: + logs: + default: "" + description: location of rule log files. + resources: + default: "" + description: "location of module resource files." + results: + default: "" + description: "location of module results." + user_resources: + cutout: + default: "/user/cutouts_{cutout}.nc" + description: "Cutout of meteorological data provided by user." + tech_specs: + default: "/user/tech_specs_{tech}.yaml" + description: "Technology specification of PV/wind." + layout_raster: + default: "/user/layouts_{layout}.tif" + description: "Raster layout file describing the spatial distribution of capacity." + layout_point: + default: "/user/layouts_{layout}.parquet" + description: "Point layout file describing the spatial distribution of capacity." + shapes: + default: "/user/shapes_{shape}.parquet" + description: "Geometries of shapes (e.g., administrative regions)." + results: + capacity_factors: + default: "/{cutout}/{shape}/{layout}/capacityfactors_{tech}.nc" + description: Capacity factors for the specified technology. +wildcards: + cutout: Cutout name + tech: Technology name + layout: Layout name + shape: Shape name diff --git a/LICENSE b/LICENSE index aa9b1bb..3946dd7 100644 --- a/LICENSE +++ b/LICENSE @@ -1,21 +1,201 @@ -MIT License - 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We also recommend that a + file or class name and description of purpose be included on the + same "printed page" as the copyright notice for easier + identification within third-party archives. + + Copyright 2026 AUTHORS + + Licensed under the Apache License, Version 2.0 (the "License"); + you may not use this file except in compliance with the License. + You may obtain a copy of the License at + + http://www.apache.org/licenses/LICENSE-2.0 + + Unless required by applicable law or agreed to in writing, software + distributed under the License is distributed on an "AS IS" BASIS, + WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. + See the License for the specific language governing permissions and + limitations under the License. diff --git a/README.md b/README.md index 8545c1c..38188b4 100644 --- a/README.md +++ b/README.md @@ -1,21 +1,45 @@ -# PV and wind area potentials and capacity factors +# PV and wind capacity factors -This data module produces area potentials and capacity factors for PV and wind at arbitrary spatial resolution. +This data module produces capacity factors for PV and wind at arbitrary spatial resolution. -A modular `snakemake` workflow built for [`clio`](https://clio.readthedocs.io/) data modules. + -## Using this module -This module can be imported directly into any `snakemake` workflow. -Please consult the integration example in `tests/integration/Snakefile` for more information. +## About + + +This is a modular `snakemake` workflow created as part of the [Modelblocks project](https://www.modelblocks.org/). It can be imported directly into any `snakemake` workflow. + +For more information, please consult the Modelblocks [documentation](https://modelblocks.readthedocs.io/en/latest/), +the [integration example](./tests/integration/Snakefile), +and the `snakemake` [documentation](https://snakemake.readthedocs.io/en/stable/snakefiles/modularization.html). + +## Overview + + +Data processing steps: + +1. +2. + +## Configuration + + +Please consult the configuration [README](./config/README.md) and the [configuration example](./config/config.yaml) for a general overview on the configuration options of this module. + +## Input / output structure + + +Please consult the [interface file](./INTERFACE.yaml) for more information. ## Development + We use [`pixi`](https://pixi.sh/) as our package manager for development. -Once installed, run the following to clone this repo and install all dependencies. +Once installed, run the following to clone this repository and install all dependencies. ```shell -git clone git@github.com:calliope-project/module_pv_wind.git +git clone git@github.com:modelblocks-org/module_pv_wind.git cd module_pv_wind pixi install --all ``` @@ -23,13 +47,7 @@ pixi install --all For testing, simply run: ```shell -pixi run test -``` - -To view the documentation locally, use: - -```shell -pixi run serve-docs +pixi run test-integration ``` To test a minimal example of a workflow using this module: @@ -37,5 +55,13 @@ To test a minimal example of a workflow using this module: ```shell pixi shell # activate this project's environment cd tests/integration/ # navigate to the integration example -snakemake --use-conda # run the workflow! +snakemake --use-conda --cores 2 # run the workflow! ``` + +## References + + +This module is based on the following research and datasets: + +* +* diff --git a/config/README.md b/config/README.md index 2bd88fa..720820c 100644 --- a/config/README.md +++ b/config/README.md @@ -1,9 +1,8 @@ -# Configuration +We recommend consulting the following before using this module: +- `config/config.yaml`: a generic example configuration of this module. +- `workflow/internal/config.schema.yaml`: a schematic overview of all the configuration options of this module. +- `INTERFACE.yaml`: lists module input and output files, and their default locations. +- `tests/integration/Snakefile`: an example of how to call this module from another workflow. -This workflow is part of the [clio project](https://clio.readthedocs.io/en/latest/). -Please consult our documentation for more details. -Other useful resources are: - -- `INTERFACE.yaml`: user input files (placed in `resources/user`) and module output files (placed in `results`). -- `workflow/internal/config.schema.yaml`: general configuration options. -- `tests/integration/`: a simple example of how to use this module. +This data module is part of the [Modelblocks](https://www.modelblocks.org/) project. +Please consult the [Modelblocks documentation](https://modelblocks.readthedocs.io/) for more details. diff --git a/config/config.yaml b/config/config.yaml index 8a3244d..0083e69 100644 --- a/config/config.yaml +++ b/config/config.yaml @@ -1,2 +1,11 @@ # A minimal example of how to configure this module -dummy_text: This is a user input. +download_cutout: True +backend: atlite +layout: raster # raster or point +aggregate: true +cutout_params: + module: era5 + x: [3.4, 7.2] + y: [50.7, 53.5] + time: ["2017-01", "2017-02"] + features: ['height', 'wind', 'influx', 'temperature'] diff --git a/figures/.gitkeep b/figures/.gitkeep new file mode 100644 index 0000000..dcafcbe --- /dev/null +++ b/figures/.gitkeep @@ -0,0 +1 @@ +# For module documentation figures diff --git a/mkdocs.yaml b/mkdocs.yaml deleted file mode 100644 index 61fa02a..0000000 --- a/mkdocs.yaml +++ /dev/null @@ -1,67 +0,0 @@ -# yaml-language-server: $schema=https://squidfunk.github.io/mkdocs-material/schema.json - -site_name: PV and wind area potentials and capacity factors -site_url: https://module_pv_wind.readthedocs.io/ -repo_name: module_pv_wind -repo_url: https://github.com/calliope-project/module_pv_wind/ -edit_uri: edit/main/docs/ -theme: - name: material - features: - - navigation.footer - - navigation.instant - - navigation.tabs - - navigation.tabs.sticky - - navigation.indexes - - search.suggest - - search.highlight - - toc.follow - palette: - # Palette toggle for automatic mode - - media: "(prefers-color-scheme)" - toggle: - icon: material/brightness-auto - name: Switch to light mode - primary: red - accent: pink - # Palette toggle for light mode - - media: "(prefers-color-scheme: light)" - scheme: default - toggle: - icon: material/weather-sunny - name: Switch to dark mode - primary: red - accent: pink - # Palette toggle for dark mode - - media: "(prefers-color-scheme: dark)" - scheme: slate - toggle: - icon: material/weather-night - name: Switch to system preference - primary: red - accent: pink -markdown_extensions: - - admonition - - pymdownx.arithmatex: - generic: true - - pymdownx.betterem: - smart_enable: all - - pymdownx.details - - pymdownx.emoji: - emoji_index: !!python/name:material.extensions.emoji.twemoji - emoji_generator: !!python/name:material.extensions.emoji.to_svg - - pymdownx.highlight: - anchor_linenums: true - - pymdownx.snippets: - check_paths: true - restrict_base_path: true - - pymdownx.superfences: - custom_fences: - - name: mermaid - class: mermaid - format: !!python/name:mermaid2.fence_mermaid_custom - - toc: - anchorlink: true -plugins: - - search -copyright: Copyright © since 2025 module_pv_wind contributors (MIT licensed) diff --git a/mypy.ini b/mypy.ini index d787271..6769a42 100644 --- a/mypy.ini +++ b/mypy.ini @@ -1,2 +1,4 @@ [mypy] disable_error_code = import-untyped +exclude = (^|/)\.(snakemake|pixi)(/|$) +exclude_gitignore = True diff --git a/pixi.lock b/pixi.lock new file mode 100644 index 0000000..6a94e00 --- /dev/null +++ b/pixi.lock @@ -0,0 +1,8133 @@ +version: 6 +environments: + default: + channels: + - 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-[feature.docs.dependencies] -mkdocs-material = ">=9.6.7" - -[feature.docs.pypi-dependencies] -mkdocs-mermaid2-plugin = ">=1.2.1" - -[feature.docs.tasks] -serve-docs = {cmd = "mkdocs serve"} -build-docs = {cmd = "mkdocs build"} - -[environments] -docs = ["docs"] +test-integration = {cmd = "pytest tests/integration_test.py"} diff --git a/tests/clio_test.py b/tests/clio_test.py deleted file mode 100644 index 5fe141b..0000000 --- a/tests/clio_test.py +++ /dev/null @@ -1,55 +0,0 @@ -"""Set of standard clio tests. - -DO NOT MANUALLY MODIFY THIS FILE! -It should be updated through our templating functions. -""" - -import subprocess -from pathlib import Path - -import pytest -from clio_tools.data_module import ModuleInterface - - -@pytest.fixture(scope="module") -def module_path(): - """Parent directory of the project.""" - return Path(__file__).parent.parent - - -def test_interface_file(module_path): - """The interfacing file should be correct.""" - assert ModuleInterface.from_yaml(module_path / "INTERFACE.yaml") - - -@pytest.mark.parametrize( - "file", - [ - "CITATION.cff", - "AUTHORS", - "INTERFACE.yaml", - "LICENSE", - "tests/integration/Snakefile", - ], -) -def test_standard_file_existance(module_path, file): - """Check that a minimal set of files used for clio automatic docs are present.""" - assert Path(module_path / file).exists() - - -def test_snakemake_all_failure(module_path): - """The snakemake 'all' rule should return an error by default.""" - process = subprocess.run( - "snakemake", shell=True, cwd=module_path, capture_output=True - ) - assert "INVALID (missing locally)" in str(process.stderr) - - -def test_snakemake_integration_testing(module_path): - """Run a light-weight test simulating someone using this module.""" - assert subprocess.run( - "snakemake --use-conda", - shell=True, - check=True, - cwd=module_path / "tests/integration", - ) diff --git a/tests/conftest.py b/tests/conftest.py new file mode 100644 index 0000000..bb65060 --- /dev/null +++ b/tests/conftest.py @@ -0,0 +1,28 @@ +"""Shared test fixtures.""" + +import shutil +import zipfile +from pathlib import Path +from urllib.request import urlretrieve + +import pytest + +TEST_FILES = ( + "https://surfdrive.surf.nl/public.php/dav/files/fdJgBEaqz58KE3H/?accept=zip" +) + + +@pytest.fixture(scope="session") +def user_path() -> Path: + """Download and unzip test files.""" + user_dir = Path("resources/user/") + # If test suite has been downloaded, assume everything is OK. + # Otherwise, cleanup and re-download. + if not Path(user_dir / "module_pv_wind_files.zip").exists(): + shutil.rmtree(user_dir, ignore_errors=True) + Path(user_dir).mkdir(parents=True, exist_ok=True) + test_zip = Path(user_dir / "module_pv_wind_files.zip") + urlretrieve(TEST_FILES, test_zip) + with zipfile.ZipFile(test_zip, "r") as zfile: + zfile.extractall(user_dir) + return user_dir diff --git a/tests/integration/Snakefile b/tests/integration/Snakefile index b1c1869..88d13be 100644 --- a/tests/integration/Snakefile +++ b/tests/integration/Snakefile @@ -1,36 +1,25 @@ # Emulate a user configuring the module. configfile: workflow.source_path("./test_config.yaml") -# Emulate how another workflow might create inputs for this module. -rule create_external_input: - message: "Example of a rule external to your module." - output: - text_file = "results/module_pv_wind/resources/user/user_message.md" - run: - from pathlib import Path - from textwrap import dedent - text = dedent("""Modular workflows can be used by more than one project! - For example, this text comes from a file external to the module. - Try your best to make this workflow reusable so that others may benefit from your methods.""" - ) - file_path = Path(output.text_file) - with file_path.open("w") as f: - f.write(text) -# Import the module and configure it. +# Import the module and configure it to use a point layout. # `snakefile:` specifies the module. It can use file paths and special github(...) / gitlab(...) markers # `prefix:` re-routes all input/output paths of the module, helping to avoid file conflicts. -module module_pv_wind: - snakefile: "../../workflow/Snakefile" - config: config["module_pv_wind"] - prefix: "results/module_pv_wind/" +module module_pv_wind_point: + snakefile: + "../../workflow/Snakefile" + config: + config["module_pv_wind_point"] + # rename all module rules with a prefix, to avoid naming conflicts. -use rule * from module_pv_wind as module_pv_wind_* +use rule * from module_pv_wind_point as module_pv_wind_point_* + # Request something from the module -rule all: - message: "A generic test case for your module." +rule nld_point: + message: + "Create capacity factors for onshore wind based on a point layout." default_target: True input: - "results/module_pv_wind/results/combined_text.md" + "results/era5_2017/NLD_NUTS2_onshore/points_NLD/capacityfactors_wind_onshore_3MW.nc", diff --git a/tests/integration/test_config.yaml b/tests/integration/test_config.yaml index e8ff7ae..61b0588 100644 --- a/tests/integration/test_config.yaml +++ b/tests/integration/test_config.yaml @@ -1,4 +1,23 @@ -module_pv_wind: - dummy_text: >- - Configuration values (like this one) are also external to the module! - This gives users a lot of flexibility in how they apply your methodology to solve their particular needs. +module_pv_wind_raster: + download_cutout: False + backend: atlite + layout: raster # raster or point + aggregate: True + cutout_params: + module: era5 + x: [3.4, 7.2] + y: [50.7, 53.5] + time: ["2017-01-01", "2017-01-03"] + features: ['height', 'wind', 'influx', 'temperature'] + +module_pv_wind_point: + download_cutout: False + backend: atlite + layout: point # raster or point + aggregate: True + cutout_params: + module: era5 + x: [3.4, 7.2] + y: [50.7, 53.5] + time: ["2017-01-01", "2017-01-03"] + features: ['height', 'wind', 'influx', 'temperature'] diff --git a/tests/integration_test.py b/tests/integration_test.py new file mode 100644 index 0000000..cb82f57 --- /dev/null +++ b/tests/integration_test.py @@ -0,0 +1,80 @@ +"""Set of standard Modelblocks tests. + +PLEASE ENSURE THIS SET OF MINIMAL TESTS WORKS BEFORE PUBLISHING YOUR MODULE. +Contents may be updated in future template updates. +""" + +import shutil +import subprocess +from pathlib import Path + +import pytest +from clio_tools.data_module import ModuleInterface + + +@pytest.fixture(scope="module") +def module_path(): + """Parent directory of the project.""" + return Path(__file__).parent.parent + + +@pytest.fixture(scope="module") +def integration_path(user_path: Path, module_path: Path): + """Ensures the minimal integration test is ready.""" + integration_dir = Path(module_path / "tests/integration") + if integration_dir.exists(): + # clean everything + shutil.rmtree(integration_dir / "resources", ignore_errors=True) + shutil.rmtree(integration_dir / "results/", ignore_errors=True) + user_integ_dir = integration_dir / "resources/user" + files_to_copy = [ + "cutouts_era5_2017.nc", + "shapes_Europe_NUTS2_onshore.parquet", + "shapes_NLD_NUTS2_onshore.parquet", + "layouts_raster_europe.tif", + "layouts_points_NLD.csv", + "tech_specs_wind_onshore_3MW.yaml", + ] + for file in files_to_copy: + destination_file = Path(user_integ_dir / file) + destination_file.parent.mkdir(parents=True, exist_ok=True) + shutil.copy(user_path / file, destination_file) + return integration_dir + + +def test_interface_file(module_path): + """The interfacing file should be correct.""" + assert ModuleInterface.from_yaml(module_path / "INTERFACE.yaml") + + +@pytest.mark.parametrize( + "file", + [ + "AUTHORS", + "CITATION.cff", + "INTERFACE.yaml", + "LICENSE", + "README.md", + "config/config.yaml", + "workflow/internal/config.schema.yaml", + "tests/integration/Snakefile", + ], +) +def test_standard_file_existance(module_path, file): + """Check that a minimal set of files used for documentation are present.""" + assert Path(module_path / file).exists() + + +def test_snakemake_all_failure(module_path): + """The snakemake 'all' rule should return an error by default.""" + process = subprocess.run( + "snakemake --cores 1", shell=True, cwd=module_path, capture_output=True + ) + assert "INVALID (missing locally)" in str(process.stderr) + + +def test_snakemake_integration_testing(integration_path): + """Run a light-weight test simulating someone using this module.""" + assert subprocess.run( + "snakemake --use-conda --cores 1", shell=True, check=True, cwd=integration_path + ) diff --git a/workflow/Snakefile b/workflow/Snakefile index fe03d49..eca0f31 100644 --- a/workflow/Snakefile +++ b/workflow/Snakefile @@ -2,7 +2,23 @@ import yaml from snakemake.utils import min_version, validate -min_version("8.10") +min_version("9.19") + + +# !!!!! IMPORTANT !!!!! +# Define pathvars for all user resource files and result files +# This allows users to re-wire how the module is used in their workflow with ease. +pathvars: + # User resources + cutout="/user/cutouts_{cutout}.nc", + tech_specs="/user/tech_specs_{tech}.yaml", + layout_raster="/user/layouts_{layout}.tif", + layout_point="/user/layouts_{layout}.csv", + shapes="/user/shapes_{shape}.parquet", + # Module results + capacity_factors="/{cutout}/{shape}/{layout}/capacityfactors_{tech}.nc", + plot_map="/{cutout}/{shape}/{layout}/capacityfactors_map_{tech}.png", + plot_overview="/{cutout}/{shape}/{layout}/capacityfactors_overview_{tech}.png", # Load the example configuration. This will be overridden by users. @@ -16,10 +32,17 @@ validate(config, workflow.source_path("internal/config.schema.yaml")) with open(workflow.source_path("internal/settings.yaml"), "r") as f: internal = yaml.safe_load(f) +# Load python files in scripts that are used in other scripts, but not run itself. +# This is necessary for integrating the snakemake module via reference to GitHub. +workflow.source_path("scripts/_backend_atlite.py") +workflow.source_path("scripts/_plots.py") +workflow.source_path("scripts/_schemas.py") + # Add all your includes here. include: "rules/automatic.smk" -include: "rules/dummy.smk" +include: "rules/capacity_factors.smk" + rule all: message: diff --git a/workflow/envs/atlite.yaml b/workflow/envs/atlite.yaml new file mode 100644 index 0000000..8b8e278 --- /dev/null +++ b/workflow/envs/atlite.yaml @@ -0,0 +1,12 @@ +name: atlite +channels: + - conda-forge + - nodefaults +dependencies: + - pyyaml + - atlite>=0.4.1 # Need at least 0.4.1 for the new cdsapi + - cfgrib # Explicitly adding because of https://github.com/PyPSA/atlite/issues/459 + - rioxarray + - rasterio + - geopandas + - pandera-geopandas=0.31.1 diff --git a/workflow/internal/config.schema.yaml b/workflow/internal/config.schema.yaml index 2bf094d..f6cf7fd 100644 --- a/workflow/internal/config.schema.yaml +++ b/workflow/internal/config.schema.yaml @@ -1,41 +1,68 @@ $schema: "https://json-schema.org/draft/2020-12/schema" description: "Schema for user-provided configuration files." type: object +required: + - download_cutout + - backend + - layout + - aggregate additionalProperties: false + properties: - dummy_text: - description: A template example. Should be deleted in real applications. + download_cutout: + type: boolean + default: false + description: "Whether to download the cutout automatically or use a user-provided one." + backend: type: string - build_cutout: - description: "Build cutout for the model." - type: object - properties: - cutout_params: - description: "Parameters for the cutout." - type: object - properties: - module: - description: "Module for the cutout." - type: string - x: - description: "x min and max." - type: array - y: - description: "y min and max." - type: array - snapshots: - description: "Snapshots for the model." + enum: ["atlite"] + description: "The backend to use for the module." + layout: + type: string + enum: ["raster", "point"] + description: "The layout type, either raster or point." + aggregate: + type: boolean + description: "Whether to aggregate the data to shapes or not." + # if download_cutout is True, need to provide these parameters, which are used to download the cutout + cutout_params: type: object + required: + - module + - x + - y + - time + additionalProperties: false properties: - start: - description: "Start and end of the snapshots." - type: string - end: - description: "Start and end of the snapshots." - type: string - inclusive: - description: "Start and end of the snapshots." + module: type: string - enum: - - left - - right \ No newline at end of file + enum: ["era5"] + description: "The module to use for downloading the cutout." + x: + type: array + items: + type: number + description: "Longitude coordinates for the cutout." + y: + type: array + items: + type: number + description: "Latitude coordinates for the cutout." + time: + type: array + items: + type: string + description: "Time range for the cutout in ISO 8601 format." + features: + type: array + items: + type: string + description: "List of features to include in the cutout." + show_progress: + type: boolean + default: true + description: "Whether to show progress during the cutout download." + monthly_requests: + type: boolean + default: false + description: "Whether to request data monthly." diff --git a/workflow/internal/settings.yaml b/workflow/internal/settings.yaml index cbb8ff5..97d635d 100644 --- a/workflow/internal/settings.yaml +++ b/workflow/internal/settings.yaml @@ -1,5 +1 @@ # Module settings that users cannot modify. -resources: - automatic: - # Links for automatically downloaded files - dummy_readme: "https://raw.githubusercontent.com/calliope-project/clio/refs/heads/main/README.md" diff --git a/workflow/rules/automatic.smk b/workflow/rules/automatic.smk index 0ebb236..496c5e1 100644 --- a/workflow/rules/automatic.smk +++ b/workflow/rules/automatic.smk @@ -1,16 +1,14 @@ """Rules to used to download automatic resource files.""" +if config["download_cutout"]: -rule dummy_download: - message: - "Download the clio README file." - params: - url=internal["resources"]["automatic"]["dummy_readme"], - output: - readme="resources/automatic/dummy_readme.md", - log: - "logs/dummy_download.log", - conda: - "../envs/shell.yaml" - shell: - 'curl -sSLo {output.readme} "{params.url}"' + rule download_cutout: + output: + "", + conda: + "../envs/atlite.yaml" + script: + "../scripts/download_cutout.py" + + +path_cutout = ancient("") diff --git a/workflow/rules/capacity_factors.smk b/workflow/rules/capacity_factors.smk new file mode 100644 index 0000000..846206e --- /dev/null +++ b/workflow/rules/capacity_factors.smk @@ -0,0 +1,33 @@ +if config["layout"] == "raster": + + rule prepare_capacityfactors_raster_layout: + input: + cutout=path_cutout, + tech_specs="", + layout="", + shapes="", + output: + data="", + plot_map="", + plot_overview="", + conda: + "../envs/atlite.yaml" + script: + "../scripts/prepare_capacityfactors_raster_layout.py" + +elif config["layout"] == "point": + + rule prepare_capacityfactors_point_layout: + input: + cutout=path_cutout, + tech_specs="", + layout="", + shapes="", + output: + data="", + plot_map="", + plot_overview="", + conda: + "../envs/atlite.yaml" + script: + "../scripts/prepare_capacityfactors_point_layout.py" diff --git a/workflow/rules/dummy.smk b/workflow/rules/dummy.smk deleted file mode 100644 index af09f22..0000000 --- a/workflow/rules/dummy.smk +++ /dev/null @@ -1,16 +0,0 @@ -rule dummy_add_text: - message: - "Dummy rule combining user inputs and automatic downloads." - params: - config_text=config["dummy_text"], - input: - user_file="resources/user/user_message.md", - readme="resources/automatic/dummy_readme.md", - output: - combined="results/combined_text.md", - log: - "logs/dummy_add_text.log", - conda: - "../envs/shell.yaml" - script: - "../scripts/dummy_script.py" diff --git a/workflow/scripts/_backend_atlite.py b/workflow/scripts/_backend_atlite.py new file mode 100644 index 0000000..970c1af --- /dev/null +++ b/workflow/scripts/_backend_atlite.py @@ -0,0 +1,89 @@ +"""Backend for capacity factor calculations using atlite.""" + +from pathlib import Path + +import atlite +import geopandas as gpd +import rasterio as rio +import xarray as xr + + +def cf_aggregated_from_point_layout( + path_cutout: str | Path, + layout: xr.DataArray, + shapes: gpd.GeoDataFrame, + tech_specs: dict, +) -> xr.DataArray: + """Aggregated capacity factors from a point layout.""" + # load cutout + cutout = atlite.Cutout(path_cutout) + + # prepare layout from list of points + layout = layout.rename(columns={"lon": "x", "lat": "y"}) + layout = cutout.layout_from_capacity_list(layout, col="capacity") + + # compute capacity factors + get_capacityfactors = getattr(cutout, tech_specs["tech"]) + + capacityfactors = get_capacityfactors( + shapes=shapes, layout=layout, **tech_specs["specs"] + ) + + return capacityfactors + + +def cf_aggregated_from_raster_layout( + path_cutout: str | Path, + layout: xr.DataArray, + shapes: gpd.GeoDataFrame, + tech_specs: dict, +) -> xr.DataArray: + """Aggregated capacity factors from a raster layout.""" + # load cutout + cutout = atlite.Cutout(path_cutout) + + # resample layout to the resolution of the cutout + match = ( + cutout.uniform_layout() + .rio.write_crs(cutout.crs) + .rio.write_transform(cutout.transform) + ) + layout_matched = layout.squeeze(drop=True) + layout_matched = layout_matched.rio.reproject_match( + match, resampling=rio.enums.Resampling.sum, nodata=0 + ) + + # compute capacity factors + get_capacityfactors = getattr(cutout, tech_specs["tech"]) + + capacityfactors = get_capacityfactors( + shapes=shapes, layout=layout_matched, **tech_specs["specs"] + ) + + return capacityfactors + + +def cf_from_point_layout( + cutout: atlite.Cutout, + layout: xr.DataArray, + shapes: gpd.GeoDataFrame, + tech_specs: dict, +) -> xr.DataArray: + """Capacity factors from a point layout.""" + raise NotImplementedError( + "We are planning to support capacity factors from point layout, " + "without aggregating to shapes, but it is not implemented yet." + ) + + +def cf_from_raster_layout( + cutout: atlite.Cutout, + layout: xr.DataArray, + shapes: gpd.GeoDataFrame, + tech_specs: dict, +) -> xr.DataArray: + """Capacity factors from a raster layout.""" + raise NotImplementedError( + "We are planning to support capacity factors from raster layout, " + "without aggregating to shapes, but it is not implemented yet." + ) diff --git a/workflow/scripts/_plots.py b/workflow/scripts/_plots.py new file mode 100644 index 0000000..9160253 --- /dev/null +++ b/workflow/scripts/_plots.py @@ -0,0 +1,120 @@ +import geopandas as gpd +import matplotlib.pyplot as plt +import pandas as pd +import xarray as xr +from _schemas import Shapes +from matplotlib.colors import LinearSegmentedColormap + +cmap_wind = LinearSegmentedColormap.from_list("cmap_wind", ["white", "blue"]) +cmap_pv = LinearSegmentedColormap.from_list("cmap_pv", ["white", "orange"]) + + +def create_plot_map(path_capacityfactors, path_shapes, path_map): + """Plot a map of the mean capacityfactors.""" + cf = xr.open_dataarray(path_capacityfactors) + shapes = gpd.read_parquet(path_shapes) + shapes = Shapes.validate(shapes) + shapes = shapes.set_index("shape_id") + + gdf_mean_cf = shapes.join( + cf.mean(dim="time").to_dataframe(name="mean_capacityfactor") + ) + + fig, ax = plt.subplots(tight_layout=True) + map_capacity_factor(gdf_mean_cf=gdf_mean_cf, column="mean_capacityfactor", ax=ax) + plt.savefig(path_map) + + +def create_plot_overview(path_capacityfactors, path_shapes, path_plot): + """Plot an overview of the mean capacityfactors.""" + cf = xr.open_dataarray(path_capacityfactors) + shapes = gpd.read_parquet(path_shapes) + shapes = Shapes.validate(shapes) + + cf_mean = cf.mean(dim="time").to_dataframe(name="mean_capacityfactor").reset_index() + + gdf_mean_cf = pd.merge(shapes[["shape_id", "country_id"]], cf_mean, on="shape_id") + + fig, ax = plt.subplots(figsize=(8, 3), tight_layout=True) + plot_overview(cf=gdf_mean_cf, column="mean_capacityfactor", ax=ax) + plt.savefig(path_plot) + + +def plot_overview(cf, column, ax=None, color="k"): + """Plots the summary statistics of the capacity factors.""" + COLS = ["shape_id", "country_id", column] + + missing_cols = [col for col in COLS if col not in cf.columns] + if missing_cols: + raise ValueError(f"Missing columns in cf: {missing_cols}") + + if ax is None: + fig, ax = plt.subplots() + + _cf = cf.sort_values(["country_id", column], ascending=[True, False]).reset_index( + drop=True + ) + _cf.index.name = "index" + + ax.scatter( + x=_cf.index, + y=_cf[column], + marker=".", + linestyle="", + linewidth=1, + color=color, + alpha=0.7, + label="Mean CF", + ) + ax.grid(which="both", axis="y", linestyle="--", alpha=0.5) + + # set a major xtick where a new country starts, and label it with the country code + major = _cf.reset_index().groupby("country_id", as_index=False).first() + ax.set_xticks(major["index"]) + + # set minor xticks and labels at the midpoinst between the major ticks + ticks = ax.get_xticks() + midpoints = (ticks[:-1] + ticks[1:]) / 2 + midpoints = midpoints.tolist() + [ticks[-1]] # add a final midpoint + + ax.set_xticks(midpoints, minor=True) + ax.set_xticklabels(major["country_id"], rotation=90, fontsize=8, minor=True) + + ax.tick_params(axis="x", which="minor", length=0) # hide minor tick marks + ax.tick_params(axis="x", which="major", labelbottom=False) # hide major tick labels + plt.xticks(fontsize=8) + + # draw vertical lines for wind and pv at the major xticks + ax.vlines( + major["index"], + ymin=0, + ymax=major[column], + color=color, + linestyle="-", + alpha=0.5, + ) + + ax.set_title("Capacity Factors") + ax.set_ylabel("Mean CF") + ax.set_xlabel("Shapes") + + return ax + + +def map_capacity_factor(gdf_mean_cf, column, ax=None): + if not ax: + fig, ax = plt.subplots(tight_layout=True) + + gdf_mean_cf.plot(ax=ax, column=column, cmap=cmap_wind, legend=True, aspect=None) + gdf_mean_cf.geometry.boundary.plot(ax=ax, color="black", linewidth=0.5) + ax.set_title("Average Capacity Factor\nOnshore Wind") + _blank_axis(ax) + + return ax + + +def _blank_axis(ax): + ax.set_xticks([]) + ax.set_yticks([]) + ax.set_xlabel("") + ax.set_ylabel("") diff --git a/workflow/scripts/_schemas.py b/workflow/scripts/_schemas.py new file mode 100644 index 0000000..68b295a --- /dev/null +++ b/workflow/scripts/_schemas.py @@ -0,0 +1,43 @@ +"""Schemas for tabular data used in the workflow.""" + +from pandera import Field, check +from pandera.pandas import DataFrameModel +from pandera.typing.geopandas import GeoSeries +from pandera.typing.pandas import Index, Series +from shapely.geometry import Point + + +class PointLayout(DataFrameModel): + class Config: + coerce = True + strict = True + + id: Index[int] = Field(unique=True) + "Unique ID for this layout point." + techs: Series[str] = Field() + "Technology type" + lat: Series[float] = Field() + "Latitude" + lon: Series[float] = Field() + "Longitude" + capacity: Series[float] = Field() + "Installed capacity" + + +class Shapes(DataFrameModel): + class Config: + coerce = True + strict = False + + shape_id: Series[str] = Field(unique=True) + "Unique ID for this shape." + country_id: Series[str] = Field() + "ISO alpha-3 code." + shape_class: Series[str] = Field(isin=["land", "maritime"]) + "Shape classifier" + geometry: GeoSeries[Point] = Field() + "Shape polygon." + + @check("geometry") + def geom_not_empty(cls, geom): + return geom.notna().all() & (~geom.is_empty).all() & geom.is_valid.all() diff --git a/workflow/scripts/download_cutout.py b/workflow/scripts/download_cutout.py index 6d3ebcd..302ba70 100644 --- a/workflow/scripts/download_cutout.py +++ b/workflow/scripts/download_cutout.py @@ -1,17 +1,31 @@ -import atlite -import pandas as pd +"""Download a cutout using atlite.""" +import logging -if __name__ == "__main__": - cutout_params = snakemake.config["build_cutout"]["cutout_params"] +import atlite - snapshots = pd.date_range(freq="h", **snakemake.config["snapshots"]) - time = [snapshots[0], snapshots[-1]] - cutout_params["time"] = slice(*cutout_params.get("time", time)) +logger = logging.getLogger(__name__) + +def download_cutout(cutout_path, cutout_params): + """Downloads a cutout based on the provided parameters.""" cutout_params["x"] = slice(*cutout_params["x"]) cutout_params["y"] = slice(*cutout_params["y"]) + cutout_params["time"] = slice(*cutout_params["time"]) features = cutout_params.pop("features", None) - cutout = atlite.Cutout(snakemake.output[0], **cutout_params) - cutout.prepare(features=features) + monthly_requests = cutout_params.pop("monthly_requests", False) + + logger.info(f"Preparing cutout with cutout_params: {cutout_params}") + logger.info(f"Preparing cutout with features: {features}") + + cutout = atlite.Cutout(cutout_path, **cutout_params) + cutout.prepare(features=features, monthly_requests=monthly_requests) + + +if __name__ == "__main__": + logger.info(f"Using atlite version: {atlite.__version__}") + + download_cutout( + cutout_path=snakemake.output[0], cutout_params=snakemake.config["cutout_params"] + ) diff --git a/workflow/scripts/dummy_script.py b/workflow/scripts/dummy_script.py deleted file mode 100644 index 2ae0049..0000000 --- a/workflow/scripts/dummy_script.py +++ /dev/null @@ -1,20 +0,0 @@ -"""A simple script to serve as an example. - -Should be deleted in real workflows. -""" - -import sys -from pathlib import Path -from typing import TYPE_CHECKING, Any - -if TYPE_CHECKING: - snakemake: Any -sys.stderr = open(snakemake.log[0], "w") - -config = snakemake.params.config_text -readme = Path(snakemake.input.readme).read_text() -user = Path(snakemake.input.user_file).read_text() - -output_text = "\n\n".join([readme, user, config]) - -Path(snakemake.output.combined).write_text(output_text) diff --git a/workflow/scripts/prepare_capacityfactors_point_layout.py b/workflow/scripts/prepare_capacityfactors_point_layout.py new file mode 100644 index 0000000..bc9b4f6 --- /dev/null +++ b/workflow/scripts/prepare_capacityfactors_point_layout.py @@ -0,0 +1,57 @@ +"""Prepare PV capacityfactors, given a cutout, a layout, shapes to aggregate to and technology specifications.""" + +import _backend_atlite as _backend_atlite +import geopandas as gpd +import pandas as pd +import yaml +from _plots import create_plot_map, create_plot_overview +from _schemas import PointLayout, Shapes + + +def read_yaml(filepath): + """Open a yaml file as python dictionary.""" + with open(filepath) as file: + return yaml.safe_load(file) + + +def prepare_capacityfactors_point_layout( + path_cutout, path_shapes, path_tech_specs, path_layout, path_output +): + """Prepare capacityfactors aggregated to shapes weighted by a point layout.""" + # load inputs + shapes = gpd.read_parquet(path_shapes) + shapes = Shapes.validate(shapes) + layout = pd.read_csv(path_layout, index_col=0) + layout = PointLayout.validate(layout) + tech_specs = read_yaml(path_tech_specs) + + # prepare inputs + shapes = shapes.set_index("shape_id") + + # compute capacityfactors + capacityfactors = _backend_atlite.cf_aggregated_from_point_layout( + path_cutout=path_cutout, layout=layout, shapes=shapes, tech_specs=tech_specs + ) + + # save output + capacityfactors.to_netcdf(path_output) + + +if __name__ == "__main__": + prepare_capacityfactors_point_layout( + path_cutout=snakemake.input.cutout, + path_shapes=snakemake.input.shapes, + path_tech_specs=snakemake.input.tech_specs, + path_layout=snakemake.input.layout, + path_output=snakemake.output.data, + ) + create_plot_map( + path_capacityfactors=snakemake.output.data, + path_shapes=snakemake.input.shapes, + path_map=snakemake.output.plot_map, + ) + create_plot_overview( + path_capacityfactors=snakemake.output.data, + path_shapes=snakemake.input.shapes, + path_plot=snakemake.output.plot_overview, + ) diff --git a/workflow/scripts/prepare_capacityfactors_raster_layout.py b/workflow/scripts/prepare_capacityfactors_raster_layout.py new file mode 100644 index 0000000..3b699f1 --- /dev/null +++ b/workflow/scripts/prepare_capacityfactors_raster_layout.py @@ -0,0 +1,57 @@ +"""Prepare PV capacityfactors, given a cutout, a layout, shapes to aggregate to and technology specifications.""" + +import _backend_atlite as _backend_atlite +import geopandas as gpd +import rioxarray as rxr +import yaml +from _plots import create_plot_map, create_plot_overview +from _schemas import Shapes + + +def read_yaml(filepath): + """Open a yaml file as python dictionary.""" + with open(filepath) as file: + return yaml.safe_load(file) + + +def prepare_capacityfactors_raster_layout( + path_cutout, path_shapes, path_tech_specs, path_layout, path_output +): + """Prepare capacityfactors aggregated to shapes weighted by a raster layout.""" + # load inputs + shapes = gpd.read_parquet(path_shapes) + shapes = Shapes.validate(shapes) + tech_specs = read_yaml(path_tech_specs) + layout = rxr.open_rasterio(path_layout, masked=True) + + # prepare inputs + shapes = shapes.set_index("shape_id") + layout = layout.fillna(0) + + # compute capacityfactors + capacityfactors = _backend_atlite.cf_aggregated_from_raster_layout( + path_cutout=path_cutout, layout=layout, shapes=shapes, tech_specs=tech_specs + ) + + # save output + capacityfactors.to_netcdf(path_output) + + +if __name__ == "__main__": + prepare_capacityfactors_raster_layout( + path_cutout=snakemake.input.cutout, + path_shapes=snakemake.input.shapes, + path_tech_specs=snakemake.input.tech_specs, + path_layout=snakemake.input.layout, + path_output=snakemake.output.data, + ) + create_plot_map( + path_capacityfactors=snakemake.output.data, + path_shapes=snakemake.input.shapes, + path_map=snakemake.output.plot_map, + ) + create_plot_overview( + path_capacityfactors=snakemake.output.data, + path_shapes=snakemake.input.shapes, + path_plot=snakemake.output.plot_overview, + )