> The problem is I need to manually copy files into my *.app directory
after
building...

You seem to have solved it by putting the cp into a script with the
pyinstaller command. But, have you read the part of the doc about using the
spec file?

>    http://pythonhosted.org/PyInstaller/#using-spec-files

It isn't clear to me what these additional files are, they have .py
suffixes but are apparently not part of the program. However if they can be
considered as data, then see

>   http://pythonhosted.org/PyInstaller/#adding-files-to-the-bundle

To do this, you need to make a spec file, which happens as a by-product of
running the first long command of your script. All the hidden-imports and
other parameters are embedded in the spec file.

Then you modify that spec file, and from then on, build the app with the
simple command "pyinstaller myspecfile".

Data files included in this way I think end up, not in the MacOS folder,
but in the Resources folder of the app. Experiment to see.

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