pymc-labs · drbenvincent · May 6, 2024 · Mar 4, 2024 · Mar 4, 2024 · Mar 4, 2024
diff --git a/CONTRIBUTING.md b/CONTRIBUTING.md
@@ -47,10 +47,10 @@ For more instructions see the [Pull request checklist](#pull-request-checklist)
 
    Always use a feature branch. It's good practice to never routinely work on the `main` branch of any repository.
 
-1. Create a new environment using Python >=3.8, for example 3.11
+1. Create the environment from the `environment.yml` file.
 
     ```bash
-    conda create --name CausalPy python=3.11
+    mamba env create -f environment.yml
     ```
 
     Activate the environment.
@@ -59,7 +59,7 @@ For more instructions see the [Pull request checklist](#pull-request-checklist)
     conda activate CausalPy
     ```
 
-    Install the package (in editable mode) and its development dependencies:
+    Install the package (in editable mode) and its development dependencies. The `--no-deps` flag is used to avoid installing the dependencies of `CausalPy` as they are already installed when installing the development dependencies. This can end up interfering with the conda-only install of pymc.
 
     ```bash
     pip install --no-deps -e .

diff --git a/Makefile b/Makefile
@@ -1,7 +1,7 @@
 .PHONY: init lint check_lint test
 
 init:
-	python -m pip install -e .
+	python -m pip install -e . --no-deps
 
 lint:
 	ruff check --fix .

diff --git a/docs/source/notebooks/did_pymc.ipynb b/docs/source/notebooks/did_pymc.ipynb
diff --git a/docs/source/notebooks/did_pymc_banks.ipynb b/docs/source/notebooks/did_pymc_banks.ipynb
diff --git a/docs/source/notebooks/geolift1.ipynb b/docs/source/notebooks/geolift1.ipynb
diff --git a/docs/source/notebooks/its_covid.ipynb b/docs/source/notebooks/its_covid.ipynb
diff --git a/docs/source/notebooks/its_pymc.ipynb b/docs/source/notebooks/its_pymc.ipynb
diff --git a/docs/source/notebooks/rd_pymc.ipynb b/docs/source/notebooks/rd_pymc.ipynb
diff --git a/docs/source/notebooks/rd_pymc_drinking.ipynb b/docs/source/notebooks/rd_pymc_drinking.ipynb
diff --git a/docs/source/notebooks/rkink_pymc.ipynb b/docs/source/notebooks/rkink_pymc.ipynb
diff --git a/docs/source/notebooks/sc_pymc.ipynb b/docs/source/notebooks/sc_pymc.ipynb
diff --git a/docs/source/notebooks/sc_pymc_brexit.ipynb b/docs/source/notebooks/sc_pymc_brexit.ipynb
diff --git a/environment.yml b/environment.yml
@@ -0,0 +1,17 @@
+name: CausalPy
+channels:
+  - conda-forge
+dependencies:
+  - arviz>=0.14.0
+  - graphviz
+  - ipython!=8.7.0
+  - matplotlib>=3.5.3
+  - numpy<1.26.0
+  - pandas
+  - patsy
+  - pymc>=5.0.0
+  - scikit-learn>=1
+  - scipy
+  - seaborn>=0.11.2
+  - statsmodels
+  - xarray>=v2022.11.0
diff --git a/pyproject.toml b/pyproject.toml
@@ -26,21 +26,7 @@ requires-python = ">=3.8"
 #
 # For an analysis of this field vs pip's requirements files see:
 # https://packaging.python.org/discussions/install-requires-vs-requirements/
-dependencies = [
-    "arviz>=0.14.0",
-    "graphviz",
-    "ipython!=8.7.0",
-    "matplotlib>=3.5.3",
-    "numpy<1.26.0",
-    "pandas",
-    "patsy",
-    "pymc>=5.0.0",
-    "scikit-learn>=1",
-    "scipy",
-    "seaborn>=0.11.2",
-    "statsmodels",
-    "xarray>=v2022.11.0",
-]
+dependencies = []
 
 # List additional groups of dependencies here (e.g. development dependencies). Users
 # will be able to install these using the "extras" syntax, for example: