Update all example scripts with long options

examples/AgoraDisk/run.sh

examples/ConstantCosmoVolume/run.sh

examples/CoolingBox/run.sh

examples/CoolingHalo/run.sh

examples/CoolingHaloWithSpin/run.sh

examples/DiscPatch/GravityOnly/run.sh

examples/DiscPatch/HydroStatic/run.sh

examples/DiscPatch/HydroStatic_1D/run.sh

examples/DwarfGalaxy/run.sh

examples/EAGLE_100/run.sh

examples/EAGLE_12/run.sh

examples/EAGLE_25/run.sh

examples/EAGLE_50/run.sh

examples/EAGLE_6/run.sh

examples/EAGLE_6/testVELOCIraptor.sh

examples/EAGLE_DMO_100/run.sh

examples/EAGLE_DMO_12/run.sh

examples/EAGLE_DMO_25/run.sh

examples/EAGLE_DMO_50/run.sh

examples/EvrardCollapse_3D/run.sh