Remove all import * about pdb2pqr

[sobolevnrm]

This is a (horrible) dependency graph as of 47ed03dd9b143bc094f30840a8d17818e831ba7c

The two import * dependencies that are still causing problems are shown in red. If these are replaced with more selective imports, the test cases fail with errors indicating missing heavy atoms. If these are included as-is, the code works.

[intendo]

I think some of the packages may already be in the system cache. I wonder if the try/except example in https://stackoverflow.com/a/33547682 would work?

[intendo]

I can't find any more import * in any of the Python files. I think we can close this one.