Added a todo for Custom Generator which needs some sort of boundary pore finder / adder
Update of gitignore
Updates to gitignore for branch
Merge branch 'develop' into feature/CustomGenerator
Some cosmetic changes to CustomGenerator, and corresponding changes to the run script.
Merge of the filename changes in develop into CustomGenerator.  Seems OK.
Commit of remaining files from merge with develop branch
Commit of documentation remaining from merge with develop
Merge branch 'develop' into feature/CustomGenerator
Merge branch 'develop' into feature/CustomGenerator
Merge branch 'develop' into feature/CustomGenerator
Update run_script to new naming
End branch 'feature/CustomGenerator' and merge into develop.  This is now called Geometry.Template
Clean-up after a messy mergy of 'feature/Custom' back onto 'develop'.