This is my directory structure

--> ProjectDirectory-->__init__.py--> BaseDirectory-->__init__.py--> AnotherBaseDirectory-->__init__.py-->program.py

inside program.py

When i give import BaseDirectory

PyCharm is unable to recognize the package

all __init__.py files contain __all__ variable with the python file names

What am i doing wrong?

You can try marking root directory as Sources Root. Right click on root directory, and click Mark Directory As -> Sources Root