From 056e06f6ebce2005be0dda46bde60aea1397bd12 Mon Sep 17 00:00:00 2001 From: Hofer-Julian Date: Tue, 26 Mar 2024 10:14:53 +0100 Subject: [PATCH 1/3] Minimal pixi default environment Only add dependencies to the default environment that are necessary to test Ribasim Python or Ribasim API. This should make it easier to keep track of which dependencies are necessary for what and also reduce solve times. --- .github/workflows/python_tests.yml | 2 +- open-vscode.bat | 2 +- pixi.toml | 76 +++++++++++++++++------------- 3 files changed, 46 insertions(+), 34 deletions(-) diff --git a/.github/workflows/python_tests.yml b/.github/workflows/python_tests.yml index 46743116f..9770ccc46 100644 --- a/.github/workflows/python_tests.yml +++ b/.github/workflows/python_tests.yml @@ -30,7 +30,7 @@ jobs: with: pixi-version: "latest" - name: Prepare pixi - run: pixi run --environment ${{ matrix.pixi-environment }} install-ci + run: pixi run --environment ${{ matrix.pixi-environment }} install-python - name: Test Ribasim Python run: pixi run --environment ${{ matrix.pixi-environment }} test-ribasim-python-cov - name: Upload coverage to Codecov diff --git a/open-vscode.bat b/open-vscode.bat index 078d226d0..ae86837bf 100644 --- a/open-vscode.bat +++ b/open-vscode.bat @@ -1 +1 @@ -pixi run code . | exit +pixi run --environment=dev code . | exit diff --git a/pixi.toml b/pixi.toml index d538096ab..7e8ff7331 100644 --- a/pixi.toml +++ b/pixi.toml @@ -14,24 +14,35 @@ repository = "https://github.com/Deltares/Ribasim" [tasks] # Installation -install-julia = "juliaup add 1.10.0 && juliaup default 1.10.0" install-ribasim-python = "pip install --no-build-isolation --no-deps --disable-pip-version-check --editable python/ribasim" install-ribasim-api = "pip install --no-build-isolation --no-deps --disable-pip-version-check --editable python/ribasim_api" install-ribasim-testmodels = "pip install --no-build-isolation --no-deps --disable-pip-version-check --editable python/ribasim_testmodels" +install-python = { depends_on = [ + "install-ribasim-python", + "install-ribasim-api", + "install-ribasim-testmodels", +] } +# Tests +test-ribasim-python = "pytest --numprocesses=4 python/ribasim/tests" +test-ribasim-python-cov = "pytest --numprocesses=4 --cov=ribasim --cov-report=xml python/ribasim/tests" +test-ribasim-api = "pytest --basetemp=python/ribasim_api/tests/temp --junitxml=report.xml python/ribasim_api/tests" + +[feature.dev.tasks] +# Installation +install-julia = "juliaup add 1.10.0 && juliaup default 1.10.0" install-pre-commit = "pre-commit install" install-ci = { depends_on = [ + "install-python", "install-julia", "update-registry-julia", - "install-ribasim-python", - "install-ribasim-api", - "install-ribasim-testmodels", + ] } install = { depends_on = [ "install-ci", "install-qgis-plugins", "install-pre-commit", ] } -# Instantiate +# Julia update-registry-julia = "julia --eval='using Pkg; Registry.update()'" update-manifest-julia = "julia --project --eval='using Pkg; Pkg.update()'" instantiate-julia = "julia --project --eval='using Pkg; Pkg.instantiate()'" @@ -80,11 +91,7 @@ build = { "cmd" = "julia --project build.jl --app --lib", cwd = "build", depends "initialize-julia", ] } remove-artifacts = "julia --eval 'rm(joinpath(Base.DEPOT_PATH[1], \"artifacts\"), force=true, recursive=true)'" - -# Test -test-ribasim-python = "pytest --numprocesses=4 python/ribasim/tests" -test-ribasim-python-cov = "pytest --numprocesses=4 --cov=ribasim --cov-report=xml python/ribasim/tests" -test-ribasim-api = "pytest --basetemp=python/ribasim_api/tests/temp --junitxml=report.xml python/ribasim_api/tests" +# Tests test-ribasim-cli = "pytest --numprocesses=4 --basetemp=build/tests/temp --junitxml=report.xml build/tests" test-ribasim-core = { cmd = "julia --project=core --eval 'using Pkg; Pkg.test()'", depends_on = [ "generate-testmodels", @@ -95,8 +102,9 @@ test-ribasim-core-cov = { cmd = "julia --project=core --eval 'using Pkg; Pkg.tes generate-testmodels = "python utils/generate-testmodels.py" tests = { depends_on = ["lint", "test-ribasim-python", "test-ribasim-core"] } # Codegen -generate-python = { cmd = "julia --project utils/gen_python.jl && ruff format python/ribasim/ribasim/schemas.py" } -codegen = { depends_on = ["initialize-julia", "generate-python"] } +codegen = { cmd = "julia --project utils/gen_python.jl && ruff format python/ribasim/ribasim/schemas.py", depends_on = [ + "initialize-julia", +] } # Publish build-ribasim-python-wheel = { cmd = "rm --recursive --force dist && python -m build && twine check dist/*", cwd = "python/ribasim" } build-ribasim-api-wheel = { cmd = "rm --recursive --force dist && python -m build && twine check dist/*", cwd = "python/ribasim_api" } @@ -142,43 +150,45 @@ ribasim-core-testmodels = { cmd = "julia --project utils/testmodelrun.jl", depen github-release = "python utils/github-release.py" [dependencies] -build = "*" geopandas = "*" -gh = "*" hatchling = "*" -juliaup = "*" -jupyterlab = "*" -libgdal-arrow-parquet = "*" matplotlib = "*" -mypy = "*" netCDF4 = "*" -pandas = "==2.1.4" # Avoid excessive deprecation warnings from pandera (#984) +numpy = "*" +pandas = "==2.1.4" # Avoid excessive deprecation warnings from pandera (#984) pandas-stubs = "*" pandera = "*" pip = "*" -platformdirs = "*" -pre-commit = "*" pyarrow = "*" pydantic = ">=2" pyogrio = "*" -pyqt-stubs = "*" pytest = "*" pytest-cov = "*" pytest-xdist = "*" python = ">=3.10" +shapely = ">=2.0" +tomli = "*" +tomli-w = "*" +xmipy = "*" +xugrid = "*" +xarray = "*" + + +[feature.dev.dependencies] +build = "*" +gh = "*" +juliaup = "*" +jupyterlab = "*" +libgdal-arrow-parquet = "*" +mypy = "*" +pre-commit = "*" +pyqt-stubs = "*" qgis = "*" qgis-plugin-manager = "*" quarto = "*" quartodoc = "*" ruff = "*" -shapely = ">=2.0" -tomli = "*" -tomli-w = "*" twine = "*" -typing-extensions = ">=4.6" -xarray = "*" -xmipy = "*" -xugrid = "*" [feature.py312.dependencies] python = "3.12.*" @@ -190,9 +200,11 @@ python = "3.11.*" python = "3.10.*" [environments] -py312=["py312"] -py311=["py311"] -py310=["py310"] +default = { features = ["py312"], solve-group = "py312" } +dev = { features = ["py312", "dev"], solve-group = "py312" } +py312 = { features = ["py312"], solve-group = "py312" } +py311 = ["py311"] +py310 = ["py310"] [activation] scripts = ["utils/env_setup.sh"] From c2566d34939538f5580b3a3628233e91e6a6f3af Mon Sep 17 00:00:00 2001 From: Hofer-Julian Date: Tue, 26 Mar 2024 10:20:39 +0100 Subject: [PATCH 2/3] Update pixi lock file --- pixi.lock | 8426 +++++++++++------------------------------------------ 1 file changed, 1757 insertions(+), 6669 deletions(-) diff --git a/pixi.lock b/pixi.lock index 782036e67..48ee66a1f 100644 --- a/pixi.lock +++ b/pixi.lock @@ -9,13 +9,6 @@ environments: - 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size: 140182 - timestamp: 1707295343437 -- kind: conda - name: watchdog - version: 4.0.0 - build: py311he4e59c2_0 - subdir: osx-64 - url: https://conda.anaconda.org/conda-forge/osx-64/watchdog-4.0.0-py311he4e59c2_0.conda - sha256: 7899be4a743bdd919c4d1a0b9e8c269871de48635a52facf42d7b9eac08c9aa0 - md5: bb33f5397b8970c29da4d967959ddcb8 - depends: - - python >=3.11,<3.12.0a0 - - python_abi 3.11.* *_cp311 - - pyyaml >=3.10 - license: Apache-2.0 - license_family: APACHE - size: 148769 - timestamp: 1707295444247 - kind: conda name: watchdog version: 4.0.0 From b54c3ae432626e77a2ac2e2af529cf86c6f391cb Mon Sep 17 00:00:00 2001 From: Hofer-Julian Date: Tue, 26 Mar 2024 10:31:48 +0100 Subject: [PATCH 3/3] Specify dev environment --- .github/workflows/core_testmodels.yml | 2 +- .github/workflows/core_tests.yml | 2 +- .github/workflows/docs.yml | 2 +- .github/workflows/python_codegen.yml | 2 +- .github/workflows/python_lint.yml | 2 +- .github/workflows/qgis.yml | 2 +- .teamcity/Ribasim/buildTypes/Ribasim_GenerateTestmodels.xml | 3 +-- .../buildTypes/Ribasim_Linux_BuildLibribasim.xml | 3 +-- .../buildTypes/Ribasim_Linux_BuildRibasimCli.xml | 3 +-- .../Ribasim_Linux/buildTypes/Ribasim_Linux_TestRibasimApi.xml | 3 +-- .../Ribasim_Linux/buildTypes/Ribasim_Linux_TestRibasimCli.xml | 3 +-- .../buildTypes/Ribasim_Windows_BuildLibribasim.xml | 3 +-- .../buildTypes/Ribasim_Windows_BuildRibasimCli.xml | 3 +-- .../buildTypes/Ribasim_Windows_TestRibasimApi.xml | 3 +-- .../buildTypes/Ribasim_Windows_TestRibasimCli.xml | 3 +-- docs/contribute/index.qmd | 2 +- docs/contribute/qgis.qmd | 4 ++-- 17 files changed, 18 insertions(+), 27 deletions(-) diff --git a/.github/workflows/core_testmodels.yml b/.github/workflows/core_testmodels.yml index 993a9dc4e..8833f6fe7 100644 --- a/.github/workflows/core_testmodels.yml +++ b/.github/workflows/core_testmodels.yml @@ -37,7 +37,7 @@ jobs: with: pixi-version: "latest" - name: Prepare pixi - run: pixi run install-ci + run: pixi run --environment=dev install-ci - name: Run testmodels with Ribasim Core run: | pixi run ribasim-core-testmodels diff --git a/.github/workflows/core_tests.yml b/.github/workflows/core_tests.yml index 0a765a530..d85f5ab2e 100644 --- a/.github/workflows/core_tests.yml +++ b/.github/workflows/core_tests.yml @@ -37,7 +37,7 @@ jobs: with: pixi-version: "latest" - name: Prepare pixi - run: pixi run install-ci + run: pixi run --environment=dev install-ci - name: Test Ribasim Core run: | pixi run test-ribasim-core-cov diff --git a/.github/workflows/docs.yml b/.github/workflows/docs.yml index 3dbb49563..c0a59462e 100644 --- a/.github/workflows/docs.yml +++ b/.github/workflows/docs.yml @@ -28,7 +28,7 @@ jobs: with: pixi-version: "latest" - name: Prepare pixi - run: pixi run install-ci + run: pixi run --environment=dev install-ci - name: Check Quarto installation and all engines run: pixi run quarto-check diff --git a/.github/workflows/python_codegen.yml b/.github/workflows/python_codegen.yml index 3d6cac018..6f027ca04 100644 --- a/.github/workflows/python_codegen.yml +++ b/.github/workflows/python_codegen.yml @@ -20,7 +20,7 @@ jobs: with: pixi-version: "latest" - name: Prepare pixi - run: pixi run install-ci + run: pixi run --environment=dev install-ci - name: Test if codegen runs without errors run: pixi run codegen - name: Ensure that no code has been generated diff --git a/.github/workflows/python_lint.yml b/.github/workflows/python_lint.yml index 15bcb778e..3c4e1e57d 100644 --- a/.github/workflows/python_lint.yml +++ b/.github/workflows/python_lint.yml @@ -20,7 +20,7 @@ jobs: with: pixi-version: "latest" - name: Prepare pixi - run: pixi run install-ci + run: pixi run --environment=dev install-ci - name: Run mypy on python/ribasim run: | pixi run mypy-ribasim-python diff --git a/.github/workflows/qgis.yml b/.github/workflows/qgis.yml index e8f46b333..6bc4d97fb 100644 --- a/.github/workflows/qgis.yml +++ b/.github/workflows/qgis.yml @@ -27,7 +27,7 @@ jobs: pixi-version: "latest" - name: Prepare pixi run: | - pixi run install-ci + pixi run --environment=dev install-ci - name: Run tests run: pixi run test-ribasim-qgis-cov - name: Upload coverage to Codecov diff --git a/.teamcity/Ribasim/buildTypes/Ribasim_GenerateTestmodels.xml b/.teamcity/Ribasim/buildTypes/Ribasim_GenerateTestmodels.xml index f385960e6..c2945c1aa 100644 --- a/.teamcity/Ribasim/buildTypes/Ribasim_GenerateTestmodels.xml +++ b/.teamcity/Ribasim/buildTypes/Ribasim_GenerateTestmodels.xml @@ -19,7 +19,7 @@ source /usr/share/Modules/init/bash module load pixi pixi --version -pixi run install-ci]]> +pixi run --environment=dev install-ci]]> @@ -56,4 +56,3 @@ pixi run generate-testmodels]]> - diff --git a/.teamcity/Ribasim_Linux/buildTypes/Ribasim_Linux_BuildLibribasim.xml b/.teamcity/Ribasim_Linux/buildTypes/Ribasim_Linux_BuildLibribasim.xml index 6b59a4f78..411c2ddcf 100644 --- a/.teamcity/Ribasim_Linux/buildTypes/Ribasim_Linux_BuildLibribasim.xml +++ b/.teamcity/Ribasim_Linux/buildTypes/Ribasim_Linux_BuildLibribasim.xml @@ -19,7 +19,7 @@ source /usr/share/Modules/init/bash module load pixi pixi --version -pixi run install-ci]]> +pixi run --environment=dev install-ci]]> @@ -63,4 +63,3 @@ pixi run build-libribasim]]> - diff --git a/.teamcity/Ribasim_Linux/buildTypes/Ribasim_Linux_BuildRibasimCli.xml b/.teamcity/Ribasim_Linux/buildTypes/Ribasim_Linux_BuildRibasimCli.xml index cd465d479..dc2bffb65 100644 --- a/.teamcity/Ribasim_Linux/buildTypes/Ribasim_Linux_BuildRibasimCli.xml +++ b/.teamcity/Ribasim_Linux/buildTypes/Ribasim_Linux_BuildRibasimCli.xml @@ -18,7 +18,7 @@ source /usr/share/Modules/init/bash module load pixi pixi --version -pixi run install-ci]]> +pixi run --environment=dev install-ci]]> @@ -70,4 +70,3 @@ pixi run build-ribasim-cli]]> - diff --git a/.teamcity/Ribasim_Linux/buildTypes/Ribasim_Linux_TestRibasimApi.xml b/.teamcity/Ribasim_Linux/buildTypes/Ribasim_Linux_TestRibasimApi.xml index dd059e9da..7174a847a 100644 --- a/.teamcity/Ribasim_Linux/buildTypes/Ribasim_Linux_TestRibasimApi.xml +++ b/.teamcity/Ribasim_Linux/buildTypes/Ribasim_Linux_TestRibasimApi.xml @@ -19,7 +19,7 @@ source /usr/share/Modules/init/bash module load pixi pixi --version -pixi run install-ci]]> +pixi run --environment=dev install-ci]]> @@ -108,4 +108,3 @@ pixi run test-ribasim-api]]> - diff --git a/.teamcity/Ribasim_Linux/buildTypes/Ribasim_Linux_TestRibasimCli.xml b/.teamcity/Ribasim_Linux/buildTypes/Ribasim_Linux_TestRibasimCli.xml index 8859f967b..8f64b9a8c 100644 --- a/.teamcity/Ribasim_Linux/buildTypes/Ribasim_Linux_TestRibasimCli.xml +++ b/.teamcity/Ribasim_Linux/buildTypes/Ribasim_Linux_TestRibasimCli.xml @@ -19,7 +19,7 @@ source /usr/share/Modules/init/bash module load pixi pixi --version -pixi run install-ci]]> +pixi run --environment=dev install-ci]]> @@ -108,4 +108,3 @@ pixi run test-ribasim-cli]]> - diff --git a/.teamcity/Ribasim_Windows/buildTypes/Ribasim_Windows_BuildLibribasim.xml b/.teamcity/Ribasim_Windows/buildTypes/Ribasim_Windows_BuildLibribasim.xml index 142e850f2..4983b1a20 100644 --- a/.teamcity/Ribasim_Windows/buildTypes/Ribasim_Windows_BuildLibribasim.xml +++ b/.teamcity/Ribasim_Windows/buildTypes/Ribasim_Windows_BuildLibribasim.xml @@ -14,7 +14,7 @@ +pixi run --environment=dev install-ci]]> @@ -52,4 +52,3 @@ pixi run build-libribasim]]> - diff --git a/.teamcity/Ribasim_Windows/buildTypes/Ribasim_Windows_BuildRibasimCli.xml b/.teamcity/Ribasim_Windows/buildTypes/Ribasim_Windows_BuildRibasimCli.xml index f1807c28d..f9c3f4f6a 100644 --- a/.teamcity/Ribasim_Windows/buildTypes/Ribasim_Windows_BuildRibasimCli.xml +++ b/.teamcity/Ribasim_Windows/buildTypes/Ribasim_Windows_BuildRibasimCli.xml @@ -12,7 +12,7 @@ - + @@ -58,4 +58,3 @@ pixi run build-ribasim-cli]]> - diff --git a/.teamcity/Ribasim_Windows/buildTypes/Ribasim_Windows_TestRibasimApi.xml b/.teamcity/Ribasim_Windows/buildTypes/Ribasim_Windows_TestRibasimApi.xml index 0d444dd2f..5ed6dca71 100644 --- a/.teamcity/Ribasim_Windows/buildTypes/Ribasim_Windows_TestRibasimApi.xml +++ b/.teamcity/Ribasim_Windows/buildTypes/Ribasim_Windows_TestRibasimApi.xml @@ -13,7 +13,7 @@ - + @@ -97,4 +97,3 @@ - diff --git a/.teamcity/Ribasim_Windows/buildTypes/Ribasim_Windows_TestRibasimCli.xml b/.teamcity/Ribasim_Windows/buildTypes/Ribasim_Windows_TestRibasimCli.xml index 0038e1143..7edcc1961 100644 --- a/.teamcity/Ribasim_Windows/buildTypes/Ribasim_Windows_TestRibasimCli.xml +++ b/.teamcity/Ribasim_Windows/buildTypes/Ribasim_Windows_TestRibasimCli.xml @@ -13,7 +13,7 @@ - + @@ -97,4 +97,3 @@ - diff --git a/docs/contribute/index.qmd b/docs/contribute/index.qmd index 2f787dee9..c35736711 100644 --- a/docs/contribute/index.qmd +++ b/docs/contribute/index.qmd @@ -35,7 +35,7 @@ First, set up pixi as described on their getting started [page](https://prefix.d Then set up the environment by running the following commands: ```sh -pixi run install +pixi run --environment=dev install ``` This will automatically install all required packages for development. diff --git a/docs/contribute/qgis.qmd b/docs/contribute/qgis.qmd index 062214d42..afaae6eef 100644 --- a/docs/contribute/qgis.qmd +++ b/docs/contribute/qgis.qmd @@ -5,7 +5,7 @@ title: "QGIS plugin development" # Set up the developer environment After you have installed the environment as described [here](index.qmd) you must still activate the QGIS plugins. -The simplest way to do this is by running `pixi run install-qgis-plugins`. +The simplest way to do this is by running `pixi run --environment=dev install-qgis-plugins`. It grabs the latest version of the iMOD QGIS plugin and it makes a symlink to the ribasim_qgis folder so that QGIS can find it. It also installs plugins that make it possible to reload and debug your plugin while QGIS is open. @@ -36,7 +36,7 @@ Then simply call `pixi run test-ribasim-qgis`. # Debugging -After installing the plugins via `pixi run install-qgis-plugins`. +After installing the plugins via `pixi run --environment=dev install-qgis-plugins`. Extra debugging tools are also installed in QGIS that is installed within your pixi environment. After you have started `pixi run qgis`, you can make alterations to the Python code and use the [Plugin Reloader](https://github.com/borysiasty/plugin_reloader) to reload the plugin without restarting QGIS.