fix(protobuf): map file paths correctly for filesystem and git configurations

[ghost]

This fixes an issue when using imports with protobuf described in #265.

Filesystem proto configuration

When files were indexed in filesStr, they were index as the full file path instead of the cleaned up file path. This resulted in protobuf trying to go to the file system for the path, but the file path used represented is not a fully qualified path.

Git proto configuration

Git experienced a similar issue as filesystem, so I added the relevant code there as well. However, it was a little different because I would need to "remove" the baseDirectory path from the filePath instead.

I've tested from both configurations, and it seems to work for me.

[weeco]

Hey @zberardo-figure ,
thanks for taking a look into this. Your suggested changes make sense to me. I just tried these changes on my local windows machine (without docker) and they seem to work. In the previous attempts it worked for Windows but not for unix based systems.

@CEikermann can you maybe give this fix a shot (after I merged to master and the docker image is built then) to see if this fixes your issue?