RFE: Better support for multiple paths

[markuslackner]

Problem statement.
If there are multiple paths configured that are containing each other ( for example

paths:
  - target: dev
  - target: dev/values.yaml

) an error will be thrown by the config validation. This check was introduced because the code is not able
to work correctly with this.

Describe the solution you'd like
The code should be able to handle such situations. Possible solutions are:

• Filter containing paths (redundance)
• Collect files and check against already processed files

There are some traps implementing this:

• Deleting files must be done correctly
• Merging / Filtering path definitions with and without source could be tricky
• ?