... but plowing ahead to the error you just presented - it just means you have a python package under multiple source roots and the package has different

__init__.py

contents in different source roots. That is not good from a Python perspective - nothing to do with Pants. I can explain why its not good if that's not clear - just speak up. To be more concrete though, an example: Say you have these source roots:

a/root1
a/root2
a/root3

Under the first two you have the same Python package `bob`:

a/root1/bob/
  __init__.py
  jake.py
a/root2/bob/
  __init__py
  jane.py

I'm claiming

a/root1/bob/__init__.py

and

a/root2/bob/__init__.py

have different contents and Pants is complaining (rightly) about that.