Update all example scripts with long options

examples/ExternalPointMass/run.sh

examples/Gradients/run.sh

examples/GreshoVortex_2D/run.sh

examples/GreshoVortex_3D/run.sh

examples/Hernquist_circularorbit/run.sh

examples/Hernquist_radialinfall/run.sh

examples/HydrostaticHalo/run.sh

examples/InteractingBlastWaves_1D/run.sh

examples/IsolatedGalaxy_dmparticles/run.sh

examples/IsolatedGalaxy_potential/run.sh

examples/IsothermalPotential/run.sh

examples/KelvinHelmholtzGrowthRate_2D/run.sh

examples/KelvinHelmholtzGrowthRate_3D/run.sh

examples/KelvinHelmholtz_2D/run.sh

examples/KeplerianRing/README.md

examples/KeplerianRing/run.sh

examples/MultiTypes/run.sh

examples/NFW_Halo/run.sh

examples/Noh_1D/run.sh

examples/Noh_2D/run.sh