Use pixi for tests, envs, and tasks

environment.yml → .binder/environment.yml

@@ -1,25 +1,25 @@
-name: ioos-metrics
-channels:
-  - conda-forge
-dependencies:
-  - python=3.13
-  - bs4
-  - ckanapi
-  - fake-useragent
-  - fiscalyear
-  - geopandas>=0.13.2
-  - gliderpy
-  - html5lib
-  - joblib
-  - lxml
-  - nbclassic
-  - pandas
-  - pdfminer.six
-  - pyarrow
-  - pyobis
-  - pytest
-  - requests
-  - suds
-  - pip
-  - pip:
-    - git+https://github.com/ioos/ioos_metrics.git
+name: ioos-metrics
+channels:
+  - conda-forge
+dependencies:
+  - python=3.12
+  - bs4
+  - ckanapi
+  - fake-useragent
+  - fiscalyear
+  - geopandas>=0.13.2
+  - gliderpy
+  - html5lib
+  - joblib
+  - lxml
+  - nbclassic
+  - pandas
+  - pdfminer.six
+  - pyarrow
+  - pyobis
+  - pytest
+  - requests
+  - suds
+  - pip
+  - pip:
+    - git+https://github.com/ioos/ioos_metrics.git

.gitattributes

@@ -0,0 +1,2 @@
+# GitHub syntax highlighting
+pixi.lock linguist-language=YAML linguist-generated=true

.github/workflows/metrics.yml

@@ -23,11 +23,11 @@ jobs:
       - name: Checkout repo
         uses: actions/checkout@v4
 
-      - name: Setup Micromamba
-        uses: mamba-org/setup-micromamba@v2
+      - uses: actions/checkout@v4
+      - name: Setup Pixi
+        uses: prefix-dev/[email protected]
         with:
-          init-shell: bash
-          environment-file: environment.yml
+          manifest-path: pyproject.toml
 
       - name: echo secrets into a file
         shell: bash -l {0}
@@ -41,10 +41,8 @@ jobs:
 
       - name: Collect quarterly GTS and BTN metrics
         shell: bash -l {0}
-        run: >
-          python btn_metrics.py
-          && python gts_regional_metrics.py
-          && python gts_atn_metrics.py
+        run: |
+          pixi run metrics
 
       - name: Get current date
         run: echo "NOW=$(date -u)" >> ${GITHUB_ENV}

.github/workflows/tests.yml

@@ -12,14 +12,13 @@ jobs:
     steps:
     - uses: actions/checkout@v4
 
-    - name: Setup Micromamba
-      uses: mamba-org/setup-micromamba@v2
+    - uses: actions/checkout@v4
+    - name: Setup Pixi
+      uses: prefix-dev/[email protected]
       with:
-        init-shell: bash
-        environment-file: environment.yml
-        environment-name: TEST
+        manifest-path: pyproject.toml
 
     - name: Tests
       shell: bash -l {0}
       run: |
-        python -m pytest -rxs tests
+        pixi run tests

.gitignore

@@ -1,4 +1,5 @@
 *.log
+updated_metrics.csv
 .ipynb_checkpoints/
 /config.py
 /website/deploy/asset_inventory.html
@@ -8,3 +9,6 @@ dist/
 ioos_metrics/_version.py
 website/deploy/gts_atn.html
 website/deploy/gts_regional.html
+# pixi environments
+.pixi
+*.egg-info

MANIFEST.in

@@ -10,6 +10,7 @@ prune gts
 prune website
 prune tests
 prune notebooks
+prune .binder
 
 exclude *.ipynb
 exclude btn_metrics.py
@@ -19,6 +20,7 @@ exclude read_bufr.py
 exclude ioos_btn_metrics.csv
 
 exclude ruff.toml
+exclude *.lock
 exclude .gitignore
 exclude .pre-commit-config.yaml
 exclude *.yml

notebooks/README.md

@@ -1,18 +1,17 @@
-# Run the metrics notebook
-
-## How to run
-
-1. Install pixi: https://pixi.sh/dev/#installation
-1. Clone this repository: `git clone https://github.com/ioos/ioos_metrics.git`
-1. Enter the repository directory: `cd gider_metrics`
-1. Create tne enviroment: `conda env create --name METRICS --file environment.yml`
-1. Start the notebook: `jupyter nbclassic`
-
-## You can also try it on mybinder
-
-[![Binder](https://mybinder.org/badge_logo.svg)](https://mybinder.org/v2/gh/ioos/ioos_metrics/HEAD?labpath=/notebooks/glider_metrics.ipynb)
-
-
-## Or Google Colab
-
-[![Open In Colab](https://colab.research.google.com/assets/colab-badge.svg)](https://colab.research.google.com/github/ioos/ioos_metrics/blob/main/notebooks/glider_metrics.ipynb)
+# Run the metrics notebook
+
+## How to run
+
+1. Install pixi: https://pixi.sh/dev/#installation
+1. Clone this repository: `git clone https://github.com/ioos/ioos_metrics.git`
+1. Enter the repository directory: `cd ioos_metrics`
+1. Start the notebook: `pixi run notebook`
+
+## You can also try it on mybinder
+
+[![Binder](https://mybinder.org/badge_logo.svg)](https://mybinder.org/v2/gh/ioos/ioos_metrics/HEAD?labpath=/notebooks/glider_metrics.ipynb)
+
+
+## Or Google Colab
+
+[![Open In Colab](https://colab.research.google.com/assets/colab-badge.svg)](https://colab.research.google.com/github/ioos/ioos_metrics/blob/main/notebooks/glider_metrics.ipynb)

pyproject.toml

@@ -62,3 +62,34 @@ ignore = [
     "tests",
     "tests/*",
 ]
+
+[tool.pixi.project]
+channels = ["conda-forge"]
+platforms = ["linux-64", "win-64", "osx-64", "osx-arm64"]
+
+[tool.pixi.pypi-dependencies]
+ioos_metrics = { path = ".", editable = true }
+
+[tool.pixi.tasks]
+notebook = "cd notebooks && jupyter nbclassic"
+tests = "python -m pytest -rxs tests"
+metrics = "python btn_metrics.py && python gts_regional_metrics.py && python gts_atn_metrics.py"
+
+[tool.pixi.dependencies]
+bs4 = ">=4.12.3,<5"
+ckanapi = ">=4.8,<5"
+fake-useragent = ">=1.4.0,<2"
+fiscalyear = ">=0.4.0,<0.5"
+geopandas = ">=0.13.2"
+gliderpy = ">=0.2.2,<0.3"
+html5lib = ">=1.1,<2"
+joblib = ">=1.4.2,<2"
+lxml = ">=5.3.0,<6"
+nbclassic = ">=1.1.0,<2"
+pandas = ">=2.2.3,<3"
+"pdfminer.six" = ">=20240706,<20240707"
+pyarrow = ">=18.0.0,<19"
+pyobis = ">=1.3.1,<2"
+pytest = ">=8.3.3,<9"
+requests = ">=2.32.3,<3"
+suds = ">=1.1.2,<2"