Why Does My Conda Environment Load Python Packages in an Unexpected Order?

Unexpected Python Paths in Conda Environment

When setting up a Conda environment, you may notice that the order of directories in your Python path differs from what you expect. Specifically, local non-Conda paths may appear before Conda paths, potentially leading to conflicts. This behavior stems from the way Python's site module configures sys.path during initialization. User-level site packages are prioritized over prefix (Conda environment) site packages.

Options for Prioritizing Conda Packages

To avoid the issue of user-level packages being loaded before Conda packages, several options are available:

1. Environment Variable: Set the environment variable PYTHONNOUSERSITE=1, which disables loading of user-level site packages.
2. Python -s Flag: Use the Python binary with the -s argument to explicitly disable user-level site packages.
3. Remove User-Level Installs: Consider removing ~/.local/lib/python* folders to prevent future user-level installations.
4. Conda Environment Variable: The conda-ecosystem-user-package-isolation package automatically sets PYTHONNOUSERSITE=1 during environment activation.
5. Alternative Packages: More granular options include setting just PYTHONNOUSERSITE=1 or clearing PYTHONPATH using the merv::envvar-pythonnousersite-true and merv::envvar-pythonpath-null Conda packages, respectively.

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