Restructure runscripts and related resources (#181)

* Add common runscript for OpenFOAM

* Format files

* More formatting

* Format cleaning scripts

* perpendicular-flap OpenFOAM: move 0.orig to 0

* Drop 0.orig from most OpenFOAM cases

* Move 0.orig to 0 also for turek-hron-fsi3

* Simplify CalculiX run scripts

* Simplify SU2 runscript

* Remove duplicate plotDisplacement.sh

* Remove deprecated log cleaning commands

* Tidy up FEniCS run and clean scripts

* Tidy up Nutils run and clean scripts

* Tidy up code_aster run script

* Clarify heat exchanger CalculiX gitignore, add 'dummy' to clean targets

* Add warning for preparing code_aster case

* Update documentation

* Move call to openfoam_remove_empty_dirs to run.sh

* Fix clean_fenics

Author: MakisH