Closed
Description
Originally reported in #23413
This seems to be a change in setuptools 61 about package discovery ... probably a related issue is pypa/setuptools#3197
mamba create -n test -c conda-forge python=3.9 numpy scipy cython -y
conda activate test
python setup.py clean
error: Multiple top-level packages discovered in a flat-layout: ['prof', 'sklearn', 'maint_tools', 'build_tools', 'asv_benchmarks', 'cache_directory'].
To avoid accidental inclusion of unwanted files or directories,
setuptools will not proceed with this build.
If you are trying to create a single distribution with multiple packages
on purpose, you should not rely on automatic discovery.
Instead, consider the following options:
1. set up custom discovery (`find` directive with `include` or `exclude`)
2. use a `src-layout`
3. explicitly set `py_modules` or `packages` with a list of names
To find more information, look for "package discovery" on setuptools docs.
Weirdly enough the other setup.py commands seems to work OK e.g. python setup.py develop or python setup.py install ...