Some fixes for warnings in 2D #855
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Pulls in fixes from AMReX-Combustion/PelePhysics#534 and makes a couple changes in PeleC:
extruded_trianglesEB geometry in 2D#ifdef AMREX_SPACEDIM == 3in Diffterm to avoid a warning about out of bounds array access (the offending case is never actually used in 2D, but the compiler doesn't know that)