Function for computing the slow RHS for the evolution equations for the scalars other than density or potential temperature
118 BL_PROFILE_REGION(
"erf_slow_rhs_post()");
122 const bool sbm_active = solverChoice.
moisture_type == MoistureType::SBM;
124 const BCRec* bc_ptr_d = domain_bcs_type_d.data();
125 const BCRec* bc_ptr_h = domain_bcs_type_h.data();
131 const MultiFab* t_mean_mf =
nullptr;
132 if (SurfLayer[Orientation(Direction::z, Orientation::low)]) { t_mean_mf = SurfLayer[Orientation(Direction::z, Orientation::low)]->get_mac_avg(level,3); }
134 const bool l_use_terrain = (solverChoice.
mesh_type != MeshType::ConstantDz);
135 const bool l_moving_terrain = (solverChoice.
terrain_type == TerrainType::MovingFittedMesh);
138 const bool l_anelastic = solverChoice.
anelastic[level];
139 const bool l_anelastic_rk2 = (solverChoice.
anelastic_type[level] == AnelasticType::RK2);
145 const bool l_reflux = ( (solverChoice.
coupling_type == CouplingType::TwoWay) && (finest_level > 0) &&
146 ( (l_anelastic && nrk == 1) || (!l_anelastic && nrk == 2) ) );
148 const bool l_use_KE = ( tc.
use_tke );
149 const bool l_need_SmnSmn = ( tc.
les_type == LESType::Deardorff ||
155 (SurfLayer[Orientation(Direction::z, Orientation::low)] !=
nullptr) );
168 const bool l_use_eb = (solverChoice.
terrain_type == TerrainType::EB);
170 auto any_SurfLayer = [&SurfLayer_ = SurfLayer]() ->
bool {
171 for (
auto it = SurfLayer_.begin(); it != SurfLayer_.end(); it++)
173 if (*it !=
nullptr) {
return true; }
178 amrex::ignore_unused(m_r2d);
180 const Box& domain = geom.Domain();
182 bool l_apply_surface_layer_fluxes_in_diffusion = any_SurfLayer();
183 #ifdef ERF_USE_EAMXX_SHOC
185 l_apply_surface_layer_fluxes_in_diffusion =
false;
190 l_apply_surface_layer_fluxes_in_diffusion =
false;
193 const GpuArray<Real, AMREX_SPACEDIM>
dxInv = geom.InvCellSizeArray();
194 const Real*
dx = geom.CellSize();
199 const Array<Real,AMREX_SPACEDIM> grav{
zero,
zero, -solverChoice.
gravity};
200 const GpuArray<Real,AMREX_SPACEDIM> grav_gpu{grav[0], grav[1], grav[2]};
213 const DistributionMapping& dm = S_data[
IntVars::cons].DistributionMap();
214 const bool use_physical_chamber_wall_flux =
215 cloud_chamber_config !=
nullptr && cloud_chamber_base_state !=
nullptr &&
218 use_physical_chamber_wall_flux ? cloud_chamber_config->
wall_boundary() :
221 std::unique_ptr<MultiFab> dflux_x;
222 std::unique_ptr<MultiFab> dflux_y;
223 std::unique_ptr<MultiFab> dflux_z;
231 const int n_flux_components = use_physical_chamber_wall_flux ?
232 std::max(1, n_qstate_total) : 1;
233 dflux_x = std::make_unique<MultiFab>(convert(ba,IntVect(1,0,0)), dm, n_flux_components,
ng);
234 dflux_y = std::make_unique<MultiFab>(convert(ba,IntVect(0,1,0)), dm, n_flux_components,
ng);
235 dflux_z = std::make_unique<MultiFab>(convert(ba,IntVect(0,0,1)), dm, n_flux_components, 0);
239 if (use_physical_chamber_wall_flux) {
240 dflux_x->setVal(0.0);
241 dflux_y->setVal(0.0);
242 dflux_z->setVal(0.0);
251 Vector<int> is_valid_slow_var; is_valid_slow_var.resize(
RhoQ1_comp+1,0);
252 if (l_use_KE) { is_valid_slow_var[
RhoKE_comp] = 1; }
271 if (l_anelastic && l_use_eb) {
272 avg_xmom.ParallelCopy(S_data[
IntVars::xmom], 0, 0, 1, 0, 1, geom.periodicity());
273 avg_ymom.ParallelCopy(S_data[
IntVars::ymom], 0, 0, 1, 0, 1, geom.periodicity());
274 avg_zmom.ParallelCopy(S_data[
IntVars::zmom], 0, 0, 1, 0, 1, geom.periodicity());
281 if (l_anelastic && !l_use_eb) {
289 if (auxiliary_inert_tracer !=
nullptr) {
295 level, method, nrk, step_old_time, input_time, target_time, dt_d,
297 avg_xmom, avg_ymom, avg_zmom, solverChoice.
advChoice, geom);
308 avg_xmom.setVal(
Real(1.0e8));
318 level, method, nrk, step_old_time, input_time, target_time, dt_d,
319 *sbm_state_manager, stage_cons_anchor, stage_cons_input,
320 stage_cons_target, avg_xmom, avg_ymom, avg_zmom, geom,
328 #pragma omp parallel if (Gpu::notInLaunchRegion())
331 std::array<FArrayBox,AMREX_SPACEDIM> flux;
337 iMultiFab physbnd_mask;
338 bool already_on_centroids =
false;
341 physbnd_mask.BuildMask(geom.Domain(), geom.periodicity(), 1, 1, 0, 1);
353 for (MFIter mfi(S_data[
IntVars::cons],
false); mfi.isValid(); ++mfi)
355 Box tbx = mfi.tilebox();
360 for (
int dir = 0; dir < AMREX_SPACEDIM; ++dir) {
362 flux[dir].resize(surroundingNodes(tbx,dir),
nvars,The_Async_Arena());
364 flux[dir].resize(surroundingNodes(tbx,dir).grow(1),
nvars,The_Async_Arena());
366 flux[dir].setVal<RunOn::Device>(0);
368 const GpuArray<const Array4<Real>, AMREX_SPACEDIM>
369 flx_arr{{AMREX_D_DECL(flux[0].array(), flux[1].array(), flux[2].array())}};
374 const Array4<const Real> & old_cons = S_old[
IntVars::cons].array(mfi);
375 const Array4< Real> & cell_rhs = S_rhs[
IntVars::cons].array(mfi);
377 const Array4< Real> & new_cons = S_new[
IntVars::cons].array(mfi);
378 const Array4< Real> & new_xmom = S_new[
IntVars::xmom].array(mfi);
379 const Array4< Real> & new_ymom = S_new[
IntVars::ymom].array(mfi);
380 const Array4< Real> & new_zmom = S_new[
IntVars::zmom].array(mfi);
382 const Array4< Real> & cur_cons = S_data[
IntVars::cons].array(mfi);
383 const Array4<const Real> & cur_prim = S_prim.array(mfi);
384 const Array4< Real> & cur_xmom = S_data[
IntVars::xmom].array(mfi);
385 const Array4< Real> & cur_ymom = S_data[
IntVars::ymom].array(mfi);
386 const Array4< Real> & cur_zmom = S_data[
IntVars::zmom].array(mfi);
388 Array4<Real> avg_xmom_arr = avg_xmom.array(mfi);
389 Array4<Real> avg_ymom_arr = avg_ymom.array(mfi);
390 Array4<Real> avg_zmom_arr = avg_zmom.array(mfi);
392 const Array4<const Real> & u =
xvel.array(mfi);
393 const Array4<const Real> & v =
yvel.array(mfi);
394 const Array4<const Real> &
w =
zvel.array(mfi);
396 const Array4<const Real>& z_nd = z_phys_nd->const_array(mfi);
397 const Array4<const Real>& z_cc = z_phys_cc->const_array(mfi);
398 const Array4<const Real>& detJ_new_arr = l_moving_terrain ? detJ_new->const_array(mfi) : Array4<const Real>{};
400 const Array4<const Real>& t_blank_arr = (terrain_blank) ? terrain_blank->const_array(mfi) :
401 Array4<const Real>{};
402 const Array4<const Real>& t_blank_xface_arr = (terrain_blank_xface) ? terrain_blank_xface->const_array(mfi) :
403 Array4<const Real>{};
404 const Array4<const Real>& t_blank_yface_arr = (terrain_blank_yface) ? terrain_blank_yface->const_array(mfi) :
405 Array4<const Real>{};
406 const Array4<const Real>& t_blank_zface_arr = (terrain_blank_zface) ? terrain_blank_zface->const_array(mfi) :
407 Array4<const Real>{};
410 const Array4<const Real>& mf_mx = mapfac[
MapFacType::m_x]->const_array(mfi);
411 const Array4<const Real>& mf_ux = mapfac[
MapFacType::u_x]->const_array(mfi);
412 const Array4<const Real>& mf_vx = mapfac[
MapFacType::v_x]->const_array(mfi);
413 const Array4<const Real>& mf_my = mapfac[
MapFacType::m_y]->const_array(mfi);
414 const Array4<const Real>& mf_uy = mapfac[
MapFacType::u_y]->const_array(mfi);
415 const Array4<const Real>& mf_vy = mapfac[
MapFacType::v_y]->const_array(mfi);
418 const Array4<const Real>& SmnSmn_a = l_need_SmnSmn ? SmnSmn->const_array(mfi) : Array4<const Real>{};
424 const GpuArray<int, IntVars::NumTypes> scomp_slow = { 2,0,0,0};
425 const GpuArray<int, IntVars::NumTypes> ncomp_slow = {nsv,0,0,0};
426 const bool copy_sbm_active = sbm_active;
434 [=] AMREX_GPU_DEVICE (
int i,
int j,
int k,
int nn) {
437 cur_cons, new_cons, i, j, k, n, copy_sbm_active,
438 copy_sbm_qc, copy_sbm_qr);
444 bool l_eb_terrain_cc =
false;
445 Array4<const int> mask_arr{};
446 Array4<const EBCellFlag> cfg_arr{};
447 Array4<const Real> ax_arr{};
448 Array4<const Real> ay_arr{};
449 Array4<const Real> az_arr{};
450 Array4<const Real> fcx_arr{};
451 Array4<const Real> fcy_arr{};
452 Array4<const Real> fcz_arr{};
453 Array4<const Real> detJ_arr{};
454 Array4<const Real> barea_arr{};
455 Array4<const Real> bcent_arr{};
459 EBCellFlagFab
const& cfg = ebfact_cc.getMultiEBCellFlagFab()[mfi];
460 cfg_arr = cfg.const_array();
461 if (cfg.getType(tbx) == FabType::singlevalued) {
462 l_eb_terrain_cc =
true;
463 ax_arr = ebfact_cc.getAreaFrac()[0]->const_array(mfi);
464 ay_arr = ebfact_cc.getAreaFrac()[1]->const_array(mfi);
465 az_arr = ebfact_cc.getAreaFrac()[2]->const_array(mfi);
466 fcx_arr = ebfact_cc.getFaceCent()[0]->const_array(mfi);
467 fcy_arr = ebfact_cc.getFaceCent()[1]->const_array(mfi);
468 fcz_arr = ebfact_cc.getFaceCent()[2]->const_array(mfi);
469 detJ_arr = ebfact_cc.getVolFrac().const_array(mfi);
470 mask_arr = physbnd_mask.const_array(mfi);
471 barea_arr = ebfact_cc.getBndryArea().const_array(mfi);
472 bcent_arr = ebfact_cc.getBndryCent().const_array(mfi);
474 ax_arr = ax->const_array(mfi);
475 ay_arr = ay->const_array(mfi);
476 az_arr = az->const_array(mfi);
477 detJ_arr = detJ->const_array(mfi);
480 ax_arr = ax->const_array(mfi);
481 ay_arr = ay->const_array(mfi);
482 az_arr = az->const_array(mfi);
483 detJ_arr = detJ->const_array(mfi);
486 AdvType horiz_adv_type, vert_adv_type;
487 Real horiz_upw_frac, vert_upw_frac;
489 Array4<Real> diffflux_x, diffflux_y, diffflux_z;
490 Array4<Real> hfx_x, hfx_y, hfx_z, diss;
491 Array4<Real> q1fx_x, q1fx_y, q1fx_z, q2fx_z;
492 Array4<Real> hfx_EB{};
499 if (Tau13) {
tau13 = Tau13->const_array(mfi); }
500 if (Tau23) {
tau23 = Tau23->const_array(mfi); }
501 diffflux_x = dflux_x->array(mfi);
502 diffflux_y = dflux_y->array(mfi);
503 diffflux_z = dflux_z->array(mfi);
505 hfx_x = Hfx1->array(mfi);
506 hfx_y = Hfx2->array(mfi);
507 hfx_z = Hfx3->array(mfi);
508 diss = Diss->array(mfi);
510 if (Q1fx1) q1fx_x = Q1fx1->array(mfi);
511 if (Q1fx2) q1fx_y = Q1fx2->array(mfi);
512 if (Q1fx3) q1fx_z = Q1fx3->array(mfi);
513 if (Q2fx3) q2fx_z = Q2fx3->array(mfi);
516 if (l_use_diff && l_use_turb) {
518 eddyDiffs !=
nullptr,
519 "erf_slow_rhs_post: active turbulence requires non-null eddyDiffs");
521 const Array4<const Real>& mu_turb =
522 l_use_turb ? eddyDiffs->const_array(mfi) : Array4<const Real>{};
530 if (is_valid_slow_var[ivar])
536 horiz_adv_type =
ac.moistscal_horiz_adv_type;
537 vert_adv_type =
ac.moistscal_vert_adv_type;
538 horiz_upw_frac =
ac.moistscal_horiz_upw_frac;
539 vert_upw_frac =
ac.moistscal_vert_upw_frac;
541 if (
ac.use_efficient_advection){
552 num_comp = n_qstate_total;
561 horiz_adv_type =
ac.dryscal_horiz_adv_type;
562 vert_adv_type =
ac.dryscal_vert_adv_type;
563 horiz_upw_frac =
ac.dryscal_horiz_upw_frac;
564 vert_upw_frac =
ac.dryscal_vert_upw_frac;
566 if (
ac.use_efficient_advection){
579 if (!l_eb_terrain_cc){
585 avg_xmom_arr, avg_ymom_arr, avg_zmom_arr,
587 detJ_arr,
dxInv, mf_mx, mf_my,
588 horiz_adv_type, vert_adv_type,
589 horiz_upw_frac, vert_upw_frac,
590 flx_arr, domain, bc_ptr_h);
597 avg_xmom_arr, avg_ymom_arr, avg_zmom_arr,
599 mask_arr, cfg_arr, ax_arr, ay_arr, az_arr,
600 fcx_arr, fcy_arr, fcz_arr,
601 detJ_arr,
dxInv, mf_mx, mf_my,
602 horiz_adv_type, vert_adv_type,
603 horiz_upw_frac, vert_upw_frac,
604 flx_arr, domain, bc_ptr_h,
605 already_on_centroids);
622 const bool componentwise_moisture =
623 use_physical_chamber_wall_flux && ivar ==
RhoQ1_comp;
624 const int n_diff_calls = componentwise_moisture ? n_qstate_total : 1;
625 for (
int qstate = 0; qstate < n_diff_calls; ++qstate) {
626 const int state_comp = componentwise_moisture ?
628 const int diffusion_start = state_comp;
629 const int diffusion_num = componentwise_moisture ? 1 : num_comp;
631 sbm_active, diffusion_start, diffusion_num,
633 const int flux_comp = componentwise_moisture ? qstate : 0;
638 const Array4<Real> diffusion_x = dflux_x->array(mfi, flux_comp);
639 const Array4<Real> diffusion_y = dflux_y->array(mfi, flux_comp);
640 const Array4<Real> diffusion_z = dflux_z->array(mfi, flux_comp);
642 if (solverChoice.
mesh_type == MeshType::StretchedDz) {
644 new_cons, cur_prim, cell_rhs,
645 diffusion_x, diffusion_y, diffusion_z,
646 stretched_dz_d,
dxInv,
649 hfx_x, hfx_y, hfx_z, q1fx_x, q1fx_y, q1fx_z,q2fx_z,
650 mu_turb, solverChoice, level,
653 }
else if (l_use_terrain) {
655 new_cons, cur_prim, cell_rhs,
656 diffusion_x, diffusion_y, diffusion_z,
657 z_nd, z_cc, ax_arr, ay_arr, az_arr,
661 hfx_x, hfx_y, hfx_z, q1fx_x, q1fx_y, q1fx_z,q2fx_z,
662 mu_turb, solverChoice, level,
665 }
else if (l_use_eb) {
667 new_cons, cur_prim, cell_rhs,
668 diffusion_x, diffusion_y, diffusion_z,
669 cfg_arr, ax_arr, ay_arr, az_arr, detJ_arr,
670 barea_arr, bcent_arr,
672 hfx_z, q1fx_z, q2fx_z, hfx_EB,
673 mu_turb, solverChoice, level,
674 bc_ptr_d, l_apply_surface_layer_fluxes_in_diffusion, SurfLayer);
677 new_cons, cur_prim, cell_rhs,
678 diffusion_x, diffusion_y, diffusion_z,
dxInv,
681 hfx_x, hfx_y, hfx_z, q1fx_x, q1fx_y, q1fx_z, q2fx_z,
682 mu_turb, solverChoice, level,
686 if (use_physical_chamber_wall_flux) {
695 tbx, domain, state_comp, flux_comp, new_cons, cur_prim,
696 cloud_chamber_base_state->const_array(mfi), u, v,
w, cell_rhs,
697 diffflux_x, diffflux_y, diffflux_z,
dxInv,
711 if (l_use_diff && is_valid_slow_var[
RhoKE_comp])
713 const Array4<const Real> tm_arr = t_mean_mf ? t_mean_mf->const_array(mfi) : Array4<const Real>{};
715 if (solverChoice.
mesh_type == MeshType::StretchedDz) {
717 domain.smallEnd(2), domain.bigEnd(2)};
719 SmnSmn_a, hfx_z, q1fx_z, diss,
tau13,
tau23, mu_turb,
720 solverChoice, level, tm_arr, grav_gpu, bc_ptr_d,
721 l_apply_surface_layer_fluxes_in_diffusion, SurfLayer, pbl_dz_inv);
722 }
else if (l_use_terrain) {
725 SmnSmn_a, hfx_z, q1fx_z, diss,
tau13,
tau23, mu_turb,
726 solverChoice, level, tm_arr, grav_gpu, bc_ptr_d,
727 l_apply_surface_layer_fluxes_in_diffusion, SurfLayer, pbl_dz_inv);
728 }
else if (!l_use_eb) {
731 SmnSmn_a, hfx_z, q1fx_z, diss,
tau13,
tau23, mu_turb,
732 solverChoice, level, tm_arr, grav_gpu, bc_ptr_d,
733 l_apply_surface_layer_fluxes_in_diffusion, SurfLayer, pbl_dz_inv);
737 #ifdef ERF_USE_EAMXX_SHOC
739 eamxx_shoc_lev->add_slow_tend(mfi,tbx,cell_rhs);
744 BL_PROFILE(
"rhs_post_8");
748 auto const& src_arr = source.const_array(mfi);
752 if (is_valid_slow_var[ivar])
757 num_comp = n_qstate_total;
770 if (l_moving_terrain)
775 [=] AMREX_GPU_DEVICE (
int i,
int j,
int k,
int nn) noexcept {
776 const int n = start_comp +
nn;
777 cell_rhs(i,j,k,n) += src_arr(i,j,k,n);
778 Real temp_val = detJ_arr(i,j,k) * old_cons(i,j,k,n) + dt * detJ_arr(i,j,k) * cell_rhs(i,j,k,n);
779 cur_cons(i,j,k,n) = temp_val / detJ_new_arr(i,j,k);
781 cur_cons(i,j,k,n) /= (
one + dt * diss(i,j,k) / amrex::max(old_cons(i,j,k,n), eps));
785 }
else if (l_anelastic && l_anelastic_rk2 && (nrk == 1)) {
790 [=] AMREX_GPU_DEVICE (
int i,
int j,
int k,
int nn) noexcept {
791 const int n = start_comp +
nn;
792 cell_rhs(i,j,k,n) += src_arr(i,j,k,n);
795 Real dt_times_old_cell_rhs = cur_cons(i,j,k,n) - old_cons(i,j,k,n);
798 cur_cons(i,j,k,n) = old_cons(i,j,k,n) +
myhalf * (dt_times_old_cell_rhs + dt * cell_rhs(i,j,k,n));
802 cur_cons(i,j,k,n) /= (
one +
myhalf * dt * diss(i,j,k) / amrex::max(old_cons(i,j,k,n), eps));
811 [=] AMREX_GPU_DEVICE (
int i,
int j,
int k,
int nn) noexcept {
812 const int n = start_comp +
nn;
813 cell_rhs(i,j,k,n) += src_arr(i,j,k,n);
814 cur_cons(i,j,k,n) = old_cons(i,j,k,n) + dt * cell_rhs(i,j,k,n);
816 cur_cons(i,j,k,n) /= (
one + dt * diss(i,j,k) / amrex::max(old_cons(i,j,k,n), eps));
827 const int klo = domain.smallEnd(2);
828 if (tbx.smallEnd(2) <=
klo && tbx.bigEnd(2) >=
klo) {
829 ParallelFor(makeSlab(tbx,2,
klo), [=] AMREX_GPU_DEVICE (
int i,
int j,
int k) noexcept {
844 BL_PROFILE(
"rhs_post_9");
848 [=] AMREX_GPU_DEVICE (
int i,
int j,
int k,
int n) noexcept {
849 new_cons(i,j,k,n) = cur_cons(i,j,k,n);
853 Box xtbx = mfi.nodaltilebox(0);
854 Box ytbx = mfi.nodaltilebox(1);
855 Box ztbx = mfi.nodaltilebox(2);
858 BL_PROFILE(
"rhs_post_10()");
859 if (l_anelastic && terrain_blank) {
861 [=] AMREX_GPU_DEVICE (
int i,
int j,
int k) noexcept {
863 Real t_blank = (t_blank_xface_arr) ? t_blank_xface_arr(i, j, k) :
864 myhalf * (t_blank_arr(i, j, k) + t_blank_arr(i-1, j, k));
865 if (t_blank ==
one) {
866 new_xmom(i,j,k) =
zero;
868 new_xmom(i,j,k) = cur_xmom(i,j,k);
871 [=] AMREX_GPU_DEVICE (
int i,
int j,
int k) noexcept {
873 Real t_blank = (t_blank_yface_arr) ? t_blank_yface_arr(i, j, k) :
874 myhalf * (t_blank_arr(i, j, k) + t_blank_arr(i, j-1, k));
875 if (t_blank ==
one) {
876 new_ymom(i,j,k) =
zero;
878 new_ymom(i,j,k) = cur_ymom(i,j,k);
881 [=] AMREX_GPU_DEVICE (
int i,
int j,
int k) noexcept {
883 Real t_blank = (t_blank_zface_arr) ? t_blank_zface_arr(i, j, k) :
884 myhalf * (t_blank_arr(i, j, k) + t_blank_arr(i, j, k-1));
885 if (t_blank ==
one) {
886 new_zmom(i,j,k) =
zero;
888 new_zmom(i,j,k) = cur_zmom(i,j,k);
892 [=] AMREX_GPU_DEVICE (
int i,
int j,
int k) noexcept {
893 Real t_blank = t_blank_arr(i, j, k );
894 if (t_blank ==
one) {
901 [=] AMREX_GPU_DEVICE (
int i,
int j,
int k) noexcept {
902 new_xmom(i,j,k) = cur_xmom(i,j,k);
904 [=] AMREX_GPU_DEVICE (
int i,
int j,
int k) noexcept {
905 new_ymom(i,j,k) = cur_ymom(i,j,k);
907 [=] AMREX_GPU_DEVICE (
int i,
int j,
int k) noexcept {
908 new_zmom(i,j,k) = cur_zmom(i,j,k);
914 BL_PROFILE(
"rhs_post_10");
918 int num_comp_reflux =
nvars - strt_comp_reflux;
919 if (level < finest_level) {
920 fr_as_crse->CrseAdd(mfi,
921 {{AMREX_D_DECL(&(flux[0]), &(flux[1]), &(flux[2]))}},
922 dx, dt, strt_comp_reflux, strt_comp_reflux, num_comp_reflux, RunOn::Device);
925 fr_as_fine->FineAdd(mfi,
926 {{AMREX_D_DECL(&(flux[0]), &(flux[1]), &(flux[2]))}},
927 dx, dt, strt_comp_reflux, strt_comp_reflux, num_comp_reflux, RunOn::Device);
933 Gpu::streamSynchronize();
939 if (cloud_budget && l_use_diff && n_qstate > 0) {
940 bool use_trapezoidal = (!l_anelastic || l_anelastic_rk2);
941 for (
int qstate = 0; qstate < n_qstate; ++qstate) {
942 MultiFab qflux_x(*dflux_x, make_alias, qstate, 1);
943 MultiFab qflux_y(*dflux_y, make_alias, qstate, 1);
944 MultiFab qflux_z(*dflux_z, make_alias, qstate, 1);
947 nrk,
static_cast<Real>(dt_d), qflux_x, qflux_y, qflux_z, geom,
void AdvectionSrcForScalars(const amrex::Box &bx, const int icomp, const int ncomp, const amrex::Array4< const amrex::Real > &avg_xmom, const amrex::Array4< const amrex::Real > &avg_ymom, const amrex::Array4< const amrex::Real > &avg_zmom, const amrex::Array4< const amrex::Real > &cell_prim, const amrex::Array4< amrex::Real > &src, const amrex::Array4< const amrex::Real > &vf_arr, const amrex::GpuArray< amrex::Real, AMREX_SPACEDIM > &cellSizeInv, const amrex::Array4< const amrex::Real > &mf_mx, const amrex::Array4< const amrex::Real > &mf_my, const AdvType horiz_adv_type, const AdvType vert_adv_type, const amrex::Real horiz_upw_frac, const amrex::Real vert_upw_frac, const amrex::GpuArray< const amrex::Array4< amrex::Real >, AMREX_SPACEDIM > &flx_arr, const amrex::Box &domain, const amrex::BCRec *bc_ptr_h)
AMREX_GPU_HOST_DEVICE AMREX_FORCE_INLINE AdvType EfficientAdvType(int nrk, AdvType adv_type)
Definition: ERF_Advection.H:467
@ tau23
Definition: ERF_DataStruct.H:48
@ tau13
Definition: ERF_DataStruct.H:48
@ nvars
Definition: ERF_DataStruct.H:194
@ v_x
Definition: ERF_DataStruct.H:37
@ u_y
Definition: ERF_DataStruct.H:38
@ v_y
Definition: ERF_DataStruct.H:38
@ m_y
Definition: ERF_DataStruct.H:38
@ u_x
Definition: ERF_DataStruct.H:37
@ m_x
Definition: ERF_DataStruct.H:37
void DiffusionSrcForState_S(const amrex::Box &bx, const amrex::Box &domain, int start_comp, int num_comp, const amrex::Array4< const amrex::Real > &cell_data, const amrex::Array4< const amrex::Real > &cell_prim, const amrex::Array4< amrex::Real > &cell_rhs, const amrex::Array4< amrex::Real > &xflux, const amrex::Array4< amrex::Real > &yflux, const amrex::Array4< amrex::Real > &zflux, const amrex::Gpu::DeviceVector< amrex::Real > &stretched_dz_d, const amrex::GpuArray< amrex::Real, AMREX_SPACEDIM > &dxInv, const amrex::Array4< const amrex::Real > &mf_mx, const amrex::Array4< const amrex::Real > &mf_ux, const amrex::Array4< const amrex::Real > &mf_vx, const amrex::Array4< const amrex::Real > &mf_my, const amrex::Array4< const amrex::Real > &mf_uy, const amrex::Array4< const amrex::Real > &mf_vy, amrex::Array4< amrex::Real > &hfx_x, amrex::Array4< amrex::Real > &hfx_y, amrex::Array4< amrex::Real > &hfx_z, amrex::Array4< amrex::Real > &qfx1_x, amrex::Array4< amrex::Real > &qfx1_y, amrex::Array4< amrex::Real > &qfx1_z, amrex::Array4< amrex::Real > &qfx2_z, const amrex::Array4< const amrex::Real > &mu_turb, const SolverChoice &solverChoice, const int level, const amrex::BCRec *bc_ptr, const bool use_SurfLayer, const amrex::Vector< std::unique_ptr< SurfaceLayer >> &SurfLayer, const amrex::Real implicit_fac)
Native adapter for regular scalar diffusion on a vertically stretched grid.
void DiffusionSrcForState_N(const amrex::Box &bx, const amrex::Box &domain, int start_comp, int num_comp, const amrex::Array4< const amrex::Real > &u, const amrex::Array4< const amrex::Real > &v, const amrex::Array4< const amrex::Real > &cell_data, const amrex::Array4< const amrex::Real > &cell_prim, const amrex::Array4< amrex::Real > &cell_rhs, const amrex::Array4< amrex::Real > &xflux, const amrex::Array4< amrex::Real > &yflux, const amrex::Array4< amrex::Real > &zflux, const amrex::GpuArray< amrex::Real, AMREX_SPACEDIM > &cellSizeInv, const amrex::Array4< const amrex::Real > &mf_mx, const amrex::Array4< const amrex::Real > &mf_ux, const amrex::Array4< const amrex::Real > &mf_vx, const amrex::Array4< const amrex::Real > &mf_my, const amrex::Array4< const amrex::Real > &mf_uy, const amrex::Array4< const amrex::Real > &mf_vy, amrex::Array4< amrex::Real > &hfx_x, amrex::Array4< amrex::Real > &hfx_y, amrex::Array4< amrex::Real > &hfx_z, amrex::Array4< amrex::Real > &qfx1_x, amrex::Array4< amrex::Real > &qfx1_y, amrex::Array4< amrex::Real > &qfx1_z, amrex::Array4< amrex::Real > &qfx2_z, const amrex::Array4< const amrex::Real > &mu_turb, const SolverChoice &solverChoice, const int level, const amrex::BCRec *bc_ptr, const bool use_SurfLayer, const amrex::Vector< std::unique_ptr< SurfaceLayer >> &SurfLayer, const amrex::Real implicit_fac)
Add regular-grid state diffusion on a uniform grid without terrain.
void DiffusionSrcForState_EB(const amrex::Box &bx, const amrex::Box &domain, int start_comp, int num_comp, const amrex::Array4< const amrex::Real > &u, const amrex::Array4< const amrex::Real > &v, const amrex::Array4< const amrex::Real > &cell_data, const amrex::Array4< const amrex::Real > &cell_prim, const amrex::Array4< amrex::Real > &cell_rhs, const amrex::Array4< amrex::Real > &xflux, const amrex::Array4< amrex::Real > &yflux, const amrex::Array4< amrex::Real > &zflux, const amrex::Array4< const amrex::EBCellFlag > &cfg_arr, const amrex::Array4< const amrex::Real > &ax_arr, const amrex::Array4< const amrex::Real > &ay_arr, const amrex::Array4< const amrex::Real > &az_arr, const amrex::Array4< const amrex::Real > &detJ, const amrex::Array4< const amrex::Real > &barea_arr, const amrex::Array4< const amrex::Real > &bcent_arr, const amrex::Real *dx_arr, const amrex::GpuArray< amrex::Real, AMREX_SPACEDIM > &cellSizeInv, amrex::Array4< amrex::Real > &hfx_z, amrex::Array4< amrex::Real > &qfx1_z, amrex::Array4< amrex::Real > &qfx2_z, amrex::Array4< amrex::Real > &hfx_EB, const amrex::Array4< const amrex::Real > &mu_turb, const SolverChoice &solverChoice, const int level, const amrex::BCRec *bc_ptr, const bool use_SurfLayer, const amrex::Vector< std::unique_ptr< SurfaceLayer >> &SurfLayer)
Add state diffusion source terms for embedded-boundary cells.
void DiffusionSrcForState_T(const amrex::Box &bx, const amrex::Box &domain, int start_comp, int num_comp, const bool &rotate, const amrex::Array4< const amrex::Real > &cell_data, const amrex::Array4< const amrex::Real > &cell_prim, const amrex::Array4< amrex::Real > &cell_rhs, const amrex::Array4< amrex::Real > &xflux, const amrex::Array4< amrex::Real > &yflux, const amrex::Array4< amrex::Real > &zflux, const amrex::Array4< const amrex::Real > &z_nd, const amrex::Array4< const amrex::Real > &z_cc, const amrex::Array4< const amrex::Real > &ax, const amrex::Array4< const amrex::Real > &ay, const amrex::Array4< const amrex::Real > &az, const amrex::Array4< const amrex::Real > &detJ, const amrex::GpuArray< amrex::Real, AMREX_SPACEDIM > &dxInv, const amrex::Array4< const amrex::Real > &mf_mx, const amrex::Array4< const amrex::Real > &mf_ux, const amrex::Array4< const amrex::Real > &mf_vx, const amrex::Array4< const amrex::Real > &mf_my, const amrex::Array4< const amrex::Real > &mf_uy, const amrex::Array4< const amrex::Real > &mf_vy, amrex::Array4< amrex::Real > &hfx_x, amrex::Array4< amrex::Real > &hfx_y, amrex::Array4< amrex::Real > &hfx_z, amrex::Array4< amrex::Real > &qfx1_x, amrex::Array4< amrex::Real > &qfx1_y, amrex::Array4< amrex::Real > &qfx1_z, amrex::Array4< amrex::Real > &qfx2_z, const amrex::Array4< const amrex::Real > &mu_turb, const SolverChoice &solverChoice, const int level, const amrex::BCRec *bc_ptr, const bool use_SurfLayer, const amrex::Vector< std::unique_ptr< SurfaceLayer >> &SurfLayer, const amrex::Real implicit_fac)
Native adapter for regular scalar diffusion on terrain-following coordinates.
void EBAdvectionSrcForScalars(const amrex::Box &bx, const int icomp, const int ncomp, const amrex::Array4< const amrex::Real > &avg_xmom, const amrex::Array4< const amrex::Real > &avg_ymom, const amrex::Array4< const amrex::Real > &avg_zmom, const amrex::Array4< const amrex::Real > &cell_prim, const amrex::Array4< amrex::Real > &src, const amrex::Array4< const int > &mask_arr, const amrex::Array4< const amrex::EBCellFlag > &cfg_arr, const amrex::Array4< const amrex::Real > &ax_arr, const amrex::Array4< const amrex::Real > &ay_arr, const amrex::Array4< const amrex::Real > &az_arr, const amrex::Array4< const amrex::Real > &fcx_arr, const amrex::Array4< const amrex::Real > &fcy_arr, const amrex::Array4< const amrex::Real > &fcz_arr, const amrex::Array4< const amrex::Real > &vf_arr, const amrex::GpuArray< amrex::Real, AMREX_SPACEDIM > &cellSizeInv, const amrex::Array4< const amrex::Real > &mf_mx, const amrex::Array4< const amrex::Real > &mf_my, const AdvType horiz_adv_type, const AdvType vert_adv_type, const amrex::Real horiz_upw_frac, const amrex::Real vert_upw_frac, const amrex::GpuArray< const amrex::Array4< amrex::Real >, AMREX_SPACEDIM > &flx_arr, const amrex::Box &domain, const amrex::BCRec *bc_ptr_h, bool already_on_centroids)
Compute EB advection tendency for scalars other than density.
const Real l_vert_implicit_fac
Definition: ERF_ImplicitPost.H:6
#define RhoScalar_comp
Definition: ERF_IndexDefines.H:46
#define Rho_comp
Definition: ERF_IndexDefines.H:42
#define RhoTheta_comp
Definition: ERF_IndexDefines.H:43
#define NSCALARS
Definition: ERF_IndexDefines.H:16
#define RhoQ1_comp
Definition: ERF_IndexDefines.H:48
AdvType
Definition: ERF_IndexDefines.H:312
#define RhoKE_comp
Definition: ERF_IndexDefines.H:44
amrex::GpuArray< Real, AMREX_SPACEDIM > dxInv
Definition: ERF_InitCustomPertVels_ParticleTests.H:17
const int klo
Definition: ERF_InitCustomPert_ABL.H:75
const Real dx
Definition: ERF_InitCustomPert_ABL.H:44
AMREX_ALWAYS_ASSERT(bx.length()[2]==khi+1)
AMREX_ALWAYS_ASSERT_WITH_MESSAGE(m_cloud_chamber_config.active, "Cloud Chamber: initializer reached without a parsed configuration")
ParallelFor(fab_box, [=] AMREX_GPU_DEVICE(int i, int j, int k) { qrcuten_arr(i, j, k)=Real(0);qscuten_arr(i, j, k)=Real(0);qicuten_arr(i, j, k)=Real(0);})
constexpr amrex::Real one
Definition: ERF_NumericalConstants.H:37
constexpr amrex::Real zero
Definition: ERF_NumericalConstants.H:36
constexpr amrex::Real myhalf
Definition: ERF_NumericalConstants.H:41
Real w
Definition: ERF_Plotfile2DInterpolator.cpp:22
const bool l_dirichlet_k
Definition: ERF_ScalarLimitPost.H:20
amrex::Real Real
Definition: ERF_ShocInterface.H:19
void AddTurbKESources(const amrex::Box &bx, const amrex::Box &domain, const amrex::Array4< const amrex::Real > &u, const amrex::Array4< const amrex::Real > &v, const amrex::Array4< const amrex::Real > &cell_data, const amrex::Array4< const amrex::Real > &cell_prim, const amrex::Array4< amrex::Real > &cell_rhs, const amrex::Array4< const amrex::Real > &SmnSmn_a, const amrex::Array4< const amrex::Real > &hfx_z, const amrex::Array4< const amrex::Real > &qfx1_z, const amrex::Array4< const amrex::Real > &diss, const amrex::Array4< const amrex::Real > &tau13, const amrex::Array4< const amrex::Real > &tau23, const amrex::Array4< const amrex::Real > &mu_turb, const SolverChoice &solverChoice, const int level, const amrex::Array4< const amrex::Real > &tm_arr, const amrex::GpuArray< amrex::Real, AMREX_SPACEDIM > grav_gpu, const amrex::BCRec *bc_ptr, const bool use_SurfLayer, const amrex::Vector< std::unique_ptr< SurfaceLayer >> &SurfLayer, const PBLDerivativeDzInvFunctor &pbl_derivative_dz_inv)
Definition: ERF_TurbKESources.H:47
void capture_stage(int scalar, int nrk, amrex::Real dt, const amrex::MultiFab &xflux, const amrex::MultiFab &yflux, const amrex::MultiFab &zflux, const amrex::Geometry &geom, int flux_comp=0, bool trapezoidal=true)
Definition: ERF_CloudChamberBudget.H:94
@ RhoQv
Definition: ERF_CloudChamberBudget.H:33
@ RhoQc
Definition: ERF_CloudChamberBudget.H:33
const std::unique_ptr< amrex::EBFArrayBoxFactory > & get_const_factory() const noexcept
Return the cell-centered EB factory.
Definition: ERF_EB.H:102
void advance_stage(int level, HostIntegrator method, int stage, double step_old_time, double input_time, double target_time, double host_stage_interval, const amrex::MultiFab &conserved_anchor, const amrex::MultiFab &conserved_input, const amrex::MultiFab &conserved_target, const amrex::MultiFab &avg_xmom, const amrex::MultiFab &avg_ymom, const amrex::MultiFab &avg_zmom, const AdvChoice &advection, const amrex::Geometry &geometry)
Definition: ERF_AuxiliaryInertTracer.cpp:136
void advance_stage_from_host(int level, erf_auxiliary::HostIntegrator method, int stage, double step_old_time, double input_time, double target_time, double host_stage_interval, SBMStateManager &state_manager, const amrex::MultiFab &S_old_cons, const amrex::MultiFab &S_new_cons, amrex::MultiFab &S_data_cons, const amrex::MultiFab &avg_xmom, const amrex::MultiFab &avg_ymom, const amrex::MultiFab &avg_zmom, const amrex::Geometry &geometry, int qc_component, int qr_component)
Definition: ERF_SBMTransport.cpp:595
@ ymom
Definition: ERF_IndexDefines.H:237
@ cons
Definition: ERF_IndexDefines.H:235
@ zmom
Definition: ERF_IndexDefines.H:238
@ xmom
Definition: ERF_IndexDefines.H:236
@ None
Definition: ERF_LSM_Types.H:6
@ ng
Definition: ERF_Morrison.H:50
@ nn
Definition: ERF_WDM6.H:32
@ xvel
Definition: ERF_IndexDefines.H:218
@ zvel
Definition: ERF_IndexDefines.H:220
@ yvel
Definition: ERF_IndexDefines.H:219
void apply(const amrex::Box &bx, const amrex::Box &domain, const int quantity, const int flux_comp, const amrex::Array4< const amrex::Real > &state, const amrex::Array4< const amrex::Real > &prim, const amrex::Array4< const amrex::Real > &base_state, const amrex::Array4< const amrex::Real > &u, const amrex::Array4< const amrex::Real > &v, const amrex::Array4< const amrex::Real > &w, const amrex::Array4< amrex::Real > &rhs, const amrex::Array4< amrex::Real > &xflux, const amrex::Array4< amrex::Real > &yflux, const amrex::Array4< amrex::Real > &zflux, const amrex::GpuArray< amrex::Real, AMREX_SPACEDIM > &dx_inv, const erf_wall_thermodynamics::Boundary &walls, const amrex::Real alpha_T, const amrex::Real alpha_C, const amrex::Real rdOcp, const bool cloudy=false)
Definition: ERF_CloudChamberWallFlux.H:1037
AMREX_GPU_HOST_DEVICE AMREX_FORCE_INLINE void copy_host_slow_component(const amrex::Array4< amrex::Real > ¤t, const amrex::Array4< const amrex::Real > &predictor, const int i, const int j, const int k, const int component, const bool sbm_active, const int qc_component, const int qr_component) noexcept
Definition: ERF_SBMStageOwnership.H:11
void require_host_write_range_allowed(const bool sbm_active, const int start_component, const int num_components, const HostWritePath path)
Definition: ERF_SBMOwnership.cpp:47
amrex::GpuArray< FaceWall, 2 *AMREX_SPACEDIM > Boundary
Definition: ERF_WallThermodynamics.H:70
real(c_double), parameter epsilon
Definition: ERF_module_model_constants.F90:12
real(c_double), private ac
Definition: ERF_module_mp_morr_two_moment.F90:181
Definition: ERF_AdvStruct.H:19
Definition: ERF_DiffStruct.H:22
MolecDiffType molec_diff_type
Selected molecular transport model.
Definition: ERF_DiffStruct.H:94
amrex::Real alpha_C
Kinematic scalar diffusivity [m2/s].
Definition: ERF_DiffStruct.H:98
amrex::Real alpha_T
Kinematic temperature diffusivity [m2/s].
Definition: ERF_DiffStruct.H:97
int qr
rain
Definition: ERF_DataStruct.H:252
int qc
cloud liquid water
Definition: ERF_DataStruct.H:250
Functor for inverse vertical spacings with constant grid spacing.
Definition: ERF_PBLModels.H:619
Functor for inverse vertical spacings for stretched grids using a spacing array.
Definition: ERF_PBLModels.H:637
Functor for inverse vertical spacings for terrain-following grids using cell-center heights.
Definition: ERF_PBLModels.H:663
amrex::Vector< TurbChoice > turbChoice
Turbulence options for each AMR level.
Definition: ERF_DataStruct.H:2252
amrex::Real gravity
Effective gravitational acceleration.
Definition: ERF_DataStruct.H:2343
bool implicit_moisture_diffusion
Whether implicit vertical moisture diffusion is included.
Definition: ERF_DataStruct.H:2281
MoistureType moisture_type
Moisture or microphysics model.
Definition: ERF_DataStruct.H:2524
CouplingType coupling_type
Multilevel coupling strategy.
Definition: ERF_DataStruct.H:2523
bool sbm_test_native_qc_write_fault
Definition: ERF_DataStruct.H:2528
bool use_rotate_surface_flux
Whether MOST surface fluxes are rotated with terrain.
Definition: ERF_DataStruct.H:2392
bool implicit_ke_diffusion
Whether implicit vertical TKE diffusion is included.
Definition: ERF_DataStruct.H:2282
amrex::Real rdOcp
Ratio of dry-air gas constant to c_p.
Definition: ERF_DataStruct.H:2345
static MeshType mesh_type
Vertical mesh representation.
Definition: ERF_DataStruct.H:2236
AdvChoice advChoice
Advection-related options.
Definition: ERF_DataStruct.H:2248
amrex::Vector< int > anelastic
Per-level flag selecting anelastic dynamics.
Definition: ERF_DataStruct.H:2259
amrex::Vector< AnelasticType > anelastic_type
Per-level two-stage scheme used by the anelastic integrator.
Definition: ERF_DataStruct.H:2260
amrex::Vector< amrex::Vector< amrex::Real > > vert_implicit_fac
Per-level, per-stage implicit vertical diffusion factors.
Definition: ERF_DataStruct.H:2277
bool transport_scalar
Whether the passive scalar component is transported.
Definition: ERF_DataStruct.H:2403
static TerrainType terrain_type
Terrain or immersed-boundary representation.
Definition: ERF_DataStruct.H:2224
bool sbm_test_donor_cfl_fault
Definition: ERF_DataStruct.H:2529
DiffChoice diffChoice
Diffusion-related options.
Definition: ERF_DataStruct.H:2249
MoistureComponentIndices moisture_indices
Index map of the moisture data carried by the active scheme: conserved-state components for the speci...
Definition: ERF_DataStruct.H:2575
Definition: ERF_TurbStruct.H:115
bool advect_tke
Whether TKE/QKE is advected.
Definition: ERF_TurbStruct.H:1011
bool implicit_tke_dissipation
Definition: ERF_TurbStruct.H:839
bool use_tke
Whether any TKE or QKE closure is active.
Definition: ERF_TurbStruct.H:927
RANSType rans_type
Selected RANS closure.
Definition: ERF_TurbStruct.H:828
bool use_keqn
Whether a microscale TKE closure is active.
Definition: ERF_TurbStruct.H:922
bool uses_eamxx_shoc() const noexcept
Query whether this level uses the EAMxx SHOC PBL scheme.
Definition: ERF_TurbStruct.H:859
bool uses_native_shoc() const noexcept
Query whether this level uses the native SHOC PBL scheme.
Definition: ERF_TurbStruct.H:868
bool dirichlet_k
Whether TKE uses Dirichlet boundary treatment.
Definition: ERF_TurbStruct.H:830
LESType les_type
Selected LES closure.
Definition: ERF_TurbStruct.H:777
bool use_kturb
Whether any turbulence model is active.
Definition: ERF_TurbStruct.H:921
PBLType pbl_type
Selected PBL closure.
Definition: ERF_TurbStruct.H:853
erf_wall_thermodynamics::Boundary wall_boundary() const noexcept
Collect thermodynamic boundary conditions for all chamber walls.
Definition: ERF_CloudChamber.H:61
bool cloudy
Definition: ERF_CloudChamber.H:42
bool physical_initialization
Definition: ERF_CloudChamber.H:43