From 43d8e7ba57335ebd2b0db2feffa516dc7f5ce7b3 Mon Sep 17 00:00:00 2001 From: f-PLT Date: Tue, 28 May 2024 10:20:43 -0400 Subject: [PATCH 1/4] Environment init --- .github/workflows/lint.yml | 6 +- .github/workflows/precommit.yml | 6 +- Makefile.variables | 2 +- environment.yml | 7 +- poetry.lock | 594 +++++++++++++++++++++++++++++++- pyproject.toml | 5 + 6 files changed, 610 insertions(+), 10 deletions(-) diff --git a/.github/workflows/lint.yml b/.github/workflows/lint.yml index 3ead8d3..e3c2ca2 100644 --- a/.github/workflows/lint.yml +++ b/.github/workflows/lint.yml @@ -14,10 +14,10 @@ jobs: steps: - uses: actions/checkout@v4 - - name: Set up Python 3.10 + - name: Set up Python 3.11 uses: actions/setup-python@v5 with: - python-version: '3.10' + python-version: '3.11' - name: Install Poetry run: | @@ -33,4 +33,4 @@ jobs: - name: Run linting checks run: | - make check-pylint \ No newline at end of file + make check-pylint diff --git a/.github/workflows/precommit.yml b/.github/workflows/precommit.yml index 92c9138..49957cb 100644 --- a/.github/workflows/precommit.yml +++ b/.github/workflows/precommit.yml @@ -14,10 +14,10 @@ jobs: steps: - uses: actions/checkout@v4 - - name: Set up Python 3.10 + - name: Set up Python 3.11 uses: actions/setup-python@v5 with: - python-version: '3.10' + python-version: '3.11' - name: Install Poetry run: | @@ -33,4 +33,4 @@ jobs: - name: Run Pre-commit checks run: | - make precommit \ No newline at end of file + make precommit diff --git a/Makefile.variables b/Makefile.variables index 8876d41..3602cb6 100644 --- a/Makefile.variables +++ b/Makefile.variables @@ -3,4 +3,4 @@ APPLICATION_NAME := climateset CONDA_ENVIRONMENT := climateset -PYTHON_VERSION := 3.10 \ No newline at end of file +PYTHON_VERSION := 3.11 diff --git a/environment.yml b/environment.yml index 4ab4632..ba16a31 100644 --- a/environment.yml +++ b/environment.yml @@ -2,5 +2,10 @@ name: climateset channels: - conda-forge dependencies: - - python=3.10 + - python=3.11 + - cdo + - nco + - xesmf + - esgf-pyclient + - xarray diff --git a/poetry.lock b/poetry.lock index 997a335..c326c0f 100644 --- a/poetry.lock +++ b/poetry.lock @@ -1,4 +1,4 @@ -# This file is automatically @generated by Poetry 1.8.2 and should not be changed by hand. +# This file is automatically @generated by Poetry 1.8.3 and should not be changed by hand. 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"xesmf-0.8.5.tar.gz", hash = "sha256:6767752f75d1900f9d28ce7e70d979964bed0ad7f1a16e1b34fac049cc26f88b"}, +] + +[package.dependencies] +cf-xarray = ">=0.5.1" +numba = ">=0.55.2" +numpy = ">=1.16" +shapely = "*" +sparse = ">=0.8.0" +xarray = ">=0.16.2" + [[package]] name = "xgcm" version = "0.6.1" @@ -3393,4 +3747,4 @@ testing = ["big-O", "jaraco.functools", "jaraco.itertools", "jaraco.test", "more [metadata] lock-version = "2.0" python-versions = ">=3.10,<3.12" -content-hash = "6c3624ab542a9f24167fd0095651ad1a258050a1a8f5b9471b05a86682100182" +content-hash = "41507d93d5c536a963b8653504ad55593514047c8155a3c7a5e144d64ce4e776" diff --git a/pyproject.toml b/pyproject.toml index 3360c83..0924f4b 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -5,6 +5,12 @@ description = "" authors = ["f-PLT "] readme = "README.md" +[tool.poetry.group.dev] +optional = true + +[tool.poetry.group.lab] +optional = true + [tool.poetry.dependencies] python = ">=3.10,<3.12" numpy = "^1.26.4" @@ -12,9 +18,9 @@ netcdf4 = "^1.6.5" xmip = "^0.7.2" tqdm = "^4.66.4" pint = "^0.23" - -[tool.poetry.group.dev] -optional = true +xesmf = "^0.8.5" +esgf-pyclient = "^0.3.1" +xarray = "^2024.5.0" [tool.poetry.group.dev.dependencies] pytest = "^7.4.4" @@ -28,9 +34,6 @@ flake8 = "^7.0.0" pre-commit = "^3.7.0" flake8-pyproject = "^1.2.3" -[tool.poetry.group.lab] -optional = true - [tool.poetry.group.lab.dependencies] jupyterlab = "^4.0.10" notebook = "^7.0.6" From 79b2d628a04a353b1ff5b388db6faeb6727a5198 Mon Sep 17 00:00:00 2001 From: f-PLT Date: Tue, 28 May 2024 17:14:46 -0400 Subject: [PATCH 4/4] Fisrt attempt updating CI for Conda --- .github/workflows/lint.yml | 46 ++++++++++++++++++++++++--------- .github/workflows/precommit.yml | 46 ++++++++++++++++++++++++--------- 2 files changed, 68 insertions(+), 24 deletions(-) diff --git a/.github/workflows/lint.yml b/.github/workflows/lint.yml index e3c2ca2..2864d2c 100644 --- a/.github/workflows/lint.yml +++ b/.github/workflows/lint.yml @@ -11,25 +11,47 @@ jobs: if: github.event.pull_request.draft == false runs-on: ubuntu-latest + defaults: + run: + shell: bash -el {0} + steps: - uses: actions/checkout@v4 - - name: Set up Python 3.11 - uses: actions/setup-python@v5 + - name: Setup Mambaforge + uses: conda-incubator/setup-miniconda@v3 with: - python-version: '3.11' - - - name: Install Poetry - run: | - pip install poetry - - - name: Configure Poetry - run: | - poetry config virtualenvs.create false + miniforge-variant: Mambaforge + miniforge-version: latest + activate-environment: climateset + use-mamba: true + + - name: Get Date + id: get-date + run: echo "today=$(/bin/date -u '+%Y%m%d')" >> $GITHUB_OUTPUT + shell: bash + + - name: Cache Conda env + uses: actions/cache@v3 + with: + path: ${{ env.CONDA }}/envs + key: + conda-${{ runner.os }}--${{ runner.arch }}--${{ + steps.get-date.outputs.today }}-${{ + hashFiles('etc/example-environment-caching.yml') }}-${{ env.CACHE_NUMBER + }} + env: + CACHE_NUMBER: 0 + id: cache + + - name: Update environment + run: + mamba env update -n climateset -f environment.yml + if: steps.cache.outputs.cache-hit != 'true' - name: Install dependencies run: | - make install + make CONDA_TOOL=mamba install - name: Run linting checks run: | diff --git a/.github/workflows/precommit.yml b/.github/workflows/precommit.yml index 49957cb..a248e70 100644 --- a/.github/workflows/precommit.yml +++ b/.github/workflows/precommit.yml @@ -11,25 +11,47 @@ jobs: if: github.event.pull_request.draft == false runs-on: ubuntu-latest + defaults: + run: + shell: bash -el {0} + steps: - uses: actions/checkout@v4 - - name: Set up Python 3.11 - uses: actions/setup-python@v5 + - name: Setup Mambaforge + uses: conda-incubator/setup-miniconda@v3 with: - python-version: '3.11' - - - name: Install Poetry - run: | - pip install poetry - - - name: Configure Poetry - run: | - poetry config virtualenvs.create false + miniforge-variant: Mambaforge + miniforge-version: latest + activate-environment: climateset + use-mamba: true + + - name: Get Date + id: get-date + run: echo "today=$(/bin/date -u '+%Y%m%d')" >> $GITHUB_OUTPUT + shell: bash + + - name: Cache Conda env + uses: actions/cache@v3 + with: + path: ${{ env.CONDA }}/envs + key: + conda-${{ runner.os }}--${{ runner.arch }}--${{ + steps.get-date.outputs.today }}-${{ + hashFiles('etc/example-environment-caching.yml') }}-${{ env.CACHE_NUMBER + }} + env: + CACHE_NUMBER: 0 + id: cache + + - name: Update environment + run: + mamba env update -n climateset -f environment.yml + if: steps.cache.outputs.cache-hit != 'true' - name: Install dependencies run: | - make install + make CONDA_TOOL=mamba install - name: Run Pre-commit checks run: |