Examples update

[jacob-moore22]

Description

This PR fixes some issues with out example input files that were a bit out of date, and updates the documentation in the examples. Should help new users orient themselves.

Also, I tweaked the driver to allow the user to define the path to the mesh to be relative to the yaml input file, which is handy.

Type of change

Please select all relevant options

• New feature (non-breaking change which adds functionality)
• Bug fix (non-breaking change which fixes an issue)
• Formatting and/or style fixes
• Breaking change (fix or feature that would cause existing functionality to not work as expected)
• This change requires a documentation update

How Has This Been Tested?

• Test A : Local regression test with OpenMP build.
• Test B :

Test Configuration:

• OS version:
• Hardware:
• Compiler:

Checklist:

• My code follows the style guidelines of this project
• I have performed a self-review of my code
• I have commented my code, particularly in hard-to-understand areas
• I have made corresponding changes to the documentation
• My changes generate no new warnings
• The code builds from scratch with my new changes
• New and existing unit tests pass locally with my changes
• Any dependent changes have been merged and published in downstream modules