Function for computing the slow RHS for the evolution equations for the scalars other than density or potential temperature
120 BL_PROFILE_REGION(
"erf_slow_rhs_post()");
124 const bool sbm_active = solverChoice.
moisture_type == MoistureType::SBM;
126 const BCRec* bc_ptr_d = domain_bcs_type_d.data();
127 const BCRec* bc_ptr_h = domain_bcs_type_h.data();
133 const MultiFab* t_mean_mf =
nullptr;
134 if (SurfLayer[Orientation(Direction::z, Orientation::low)]) { t_mean_mf = SurfLayer[Orientation(Direction::z, Orientation::low)]->get_mac_avg(level,3); }
136 const bool l_use_terrain = (solverChoice.
mesh_type != MeshType::ConstantDz);
137 const bool l_moving_terrain = (solverChoice.
terrain_type == TerrainType::MovingFittedMesh);
140 const bool l_anelastic = solverChoice.
anelastic[level];
141 const bool l_anelastic_rk2 = (solverChoice.
anelastic_type[level] == AnelasticType::RK2);
145 const bool l_reflux =
IsRefluxStage(solverChoice, level, finest_level, nrk);
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]};
211 const DistributionMapping& dm = S_data[
IntVars::cons].DistributionMap();
212 const bool use_physical_chamber_wall_flux =
213 cloud_chamber_config !=
nullptr && cloud_chamber_base_state !=
nullptr &&
216 use_physical_chamber_wall_flux ? cloud_chamber_config->
wall_boundary() :
219 std::unique_ptr<MultiFab> dflux_x;
220 std::unique_ptr<MultiFab> dflux_y;
221 std::unique_ptr<MultiFab> dflux_z;
229 const int n_flux_components = use_physical_chamber_wall_flux ?
230 std::max(1, n_qstate_total) : 1;
231 dflux_x = std::make_unique<MultiFab>(convert(ba,IntVect(1,0,0)), dm, n_flux_components,
ng);
232 dflux_y = std::make_unique<MultiFab>(convert(ba,IntVect(0,1,0)), dm, n_flux_components,
ng);
233 dflux_z = std::make_unique<MultiFab>(convert(ba,IntVect(0,0,1)), dm, n_flux_components, 0);
237 if (use_physical_chamber_wall_flux) {
238 dflux_x->setVal(0.0);
239 dflux_y->setVal(0.0);
240 dflux_z->setVal(0.0);
249 Vector<int> is_valid_slow_var; is_valid_slow_var.resize(
RhoQ1_comp+1,0);
250 if (l_use_KE) { is_valid_slow_var[
RhoKE_comp] = 1; }
276 if (auxiliary_inert_tracer !=
nullptr) {
282 level, method, nrk, step_old_time, input_time, target_time, dt_d,
284 avg_xmom, avg_ymom, avg_zmom, solverChoice.
advChoice, geom);
295 avg_xmom.setVal(
Real(1.0e8));
305 level, method, nrk, step_old_time, input_time, target_time, dt_d,
306 *sbm_state_manager, stage_cons_anchor, stage_cons_input,
307 stage_cons_target, avg_xmom, avg_ymom, avg_zmom, geom,
315 #pragma omp parallel if (Gpu::notInLaunchRegion())
318 std::array<FArrayBox,AMREX_SPACEDIM> flux;
324 iMultiFab physbnd_mask;
325 bool already_on_centroids =
false;
328 physbnd_mask.BuildMask(geom.Domain(), geom.periodicity(), 1, 1, 0, 1);
340 for (MFIter mfi(S_data[
IntVars::cons],
false); mfi.isValid(); ++mfi)
342 Box tbx = mfi.tilebox();
347 for (
int dir = 0; dir < AMREX_SPACEDIM; ++dir) {
349 flux[dir].resize(surroundingNodes(tbx,dir),
nvars,The_Async_Arena());
351 flux[dir].resize(surroundingNodes(tbx,dir).grow(1),
nvars,The_Async_Arena());
353 flux[dir].setVal<RunOn::Device>(0);
355 const GpuArray<const Array4<Real>, AMREX_SPACEDIM>
356 flx_arr{{AMREX_D_DECL(flux[0].array(), flux[1].array(), flux[2].array())}};
369 const Array4<const Real> & old_cons = S_old[
IntVars::cons].array(mfi);
370 const Array4< Real> & cell_rhs = S_rhs[
IntVars::cons].array(mfi);
372 const Array4< Real> & new_cons = S_new[
IntVars::cons].array(mfi);
373 const Array4< Real> & new_xmom = S_new[
IntVars::xmom].array(mfi);
374 const Array4< Real> & new_ymom = S_new[
IntVars::ymom].array(mfi);
375 const Array4< Real> & new_zmom = S_new[
IntVars::zmom].array(mfi);
377 const Array4< Real> & cur_cons = S_data[
IntVars::cons].array(mfi);
378 const Array4<const Real> & cur_prim = S_prim.array(mfi);
379 const Array4< Real> & cur_xmom = S_data[
IntVars::xmom].array(mfi);
380 const Array4< Real> & cur_ymom = S_data[
IntVars::ymom].array(mfi);
381 const Array4< Real> & cur_zmom = S_data[
IntVars::zmom].array(mfi);
383 Array4<Real> avg_xmom_arr = avg_xmom.array(mfi);
384 Array4<Real> avg_ymom_arr = avg_ymom.array(mfi);
385 Array4<Real> avg_zmom_arr = avg_zmom.array(mfi);
387 const Array4<const Real> & u =
xvel.array(mfi);
388 const Array4<const Real> & v =
yvel.array(mfi);
389 const Array4<const Real> &
w =
zvel.array(mfi);
391 const Array4<const Real>& z_nd = z_phys_nd->const_array(mfi);
392 const Array4<const Real>& z_cc = z_phys_cc->const_array(mfi);
393 const Array4<const Real>& detJ_new_arr = l_moving_terrain ? detJ_new->const_array(mfi) : Array4<const Real>{};
395 const Array4<const Real>& t_blank_arr = (terrain_blank) ? terrain_blank->const_array(mfi) :
396 Array4<const Real>{};
397 const Array4<const Real>& t_blank_xface_arr = (terrain_blank_xface) ? terrain_blank_xface->const_array(mfi) :
398 Array4<const Real>{};
399 const Array4<const Real>& t_blank_yface_arr = (terrain_blank_yface) ? terrain_blank_yface->const_array(mfi) :
400 Array4<const Real>{};
401 const Array4<const Real>& t_blank_zface_arr = (terrain_blank_zface) ? terrain_blank_zface->const_array(mfi) :
402 Array4<const Real>{};
405 const Array4<const Real>& mf_mx = mapfac[
MapFacType::m_x]->const_array(mfi);
406 const Array4<const Real>& mf_ux = mapfac[
MapFacType::u_x]->const_array(mfi);
407 const Array4<const Real>& mf_vx = mapfac[
MapFacType::v_x]->const_array(mfi);
408 const Array4<const Real>& mf_my = mapfac[
MapFacType::m_y]->const_array(mfi);
409 const Array4<const Real>& mf_uy = mapfac[
MapFacType::u_y]->const_array(mfi);
410 const Array4<const Real>& mf_vy = mapfac[
MapFacType::v_y]->const_array(mfi);
413 const Array4<const Real>& SmnSmn_a = l_need_SmnSmn ? SmnSmn->const_array(mfi) : Array4<const Real>{};
419 const GpuArray<int, IntVars::NumTypes> scomp_slow = { 2,0,0,0};
420 const GpuArray<int, IntVars::NumTypes> ncomp_slow = {nsv,0,0,0};
421 const bool copy_sbm_active = sbm_active;
429 [=] AMREX_GPU_DEVICE (
int i,
int j,
int k,
int nn) {
432 cur_cons, new_cons, i, j, k, n, copy_sbm_active,
433 copy_sbm_qc, copy_sbm_qr);
439 bool l_eb_terrain_cc =
false;
440 Array4<const int> mask_arr{};
441 Array4<const EBCellFlag> cfg_arr{};
442 Array4<const Real> ax_arr{};
443 Array4<const Real> ay_arr{};
444 Array4<const Real> az_arr{};
445 Array4<const Real> fcx_arr{};
446 Array4<const Real> fcy_arr{};
447 Array4<const Real> fcz_arr{};
448 Array4<const Real> detJ_arr{};
449 Array4<const Real> barea_arr{};
450 Array4<const Real> bcent_arr{};
454 EBCellFlagFab
const& cfg = ebfact_cc.getMultiEBCellFlagFab()[mfi];
455 cfg_arr = cfg.const_array();
456 if (cfg.getType(tbx) == FabType::singlevalued) {
457 l_eb_terrain_cc =
true;
458 ax_arr = ebfact_cc.getAreaFrac()[0]->const_array(mfi);
459 ay_arr = ebfact_cc.getAreaFrac()[1]->const_array(mfi);
460 az_arr = ebfact_cc.getAreaFrac()[2]->const_array(mfi);
461 fcx_arr = ebfact_cc.getFaceCent()[0]->const_array(mfi);
462 fcy_arr = ebfact_cc.getFaceCent()[1]->const_array(mfi);
463 fcz_arr = ebfact_cc.getFaceCent()[2]->const_array(mfi);
464 detJ_arr = ebfact_cc.getVolFrac().const_array(mfi);
465 mask_arr = physbnd_mask.const_array(mfi);
466 barea_arr = ebfact_cc.getBndryArea().const_array(mfi);
467 bcent_arr = ebfact_cc.getBndryCent().const_array(mfi);
469 ax_arr = ax->const_array(mfi);
470 ay_arr = ay->const_array(mfi);
471 az_arr = az->const_array(mfi);
472 detJ_arr = detJ->const_array(mfi);
475 ax_arr = ax->const_array(mfi);
476 ay_arr = ay->const_array(mfi);
477 az_arr = az->const_array(mfi);
478 detJ_arr = detJ->const_array(mfi);
481 AdvType horiz_adv_type, vert_adv_type;
482 Real horiz_upw_frac, vert_upw_frac;
484 Array4<Real> diffflux_x, diffflux_y, diffflux_z;
485 Array4<Real> hfx_x, hfx_y, hfx_z, diss;
486 Array4<Real> q1fx_x, q1fx_y, q1fx_z, q2fx_z;
487 Array4<Real> hfx_EB{};
494 if (Tau13) {
tau13 = Tau13->const_array(mfi); }
495 if (Tau23) {
tau23 = Tau23->const_array(mfi); }
496 diffflux_x = dflux_x->array(mfi);
497 diffflux_y = dflux_y->array(mfi);
498 diffflux_z = dflux_z->array(mfi);
500 hfx_x = Hfx1->array(mfi);
501 hfx_y = Hfx2->array(mfi);
502 hfx_z = Hfx3->array(mfi);
503 diss = Diss->array(mfi);
505 if (Q1fx1) q1fx_x = Q1fx1->array(mfi);
506 if (Q1fx2) q1fx_y = Q1fx2->array(mfi);
507 if (Q1fx3) q1fx_z = Q1fx3->array(mfi);
508 if (Q2fx3) q2fx_z = Q2fx3->array(mfi);
511 if (l_use_diff && l_use_turb) {
513 eddyDiffs !=
nullptr,
514 "erf_slow_rhs_post: active turbulence requires non-null eddyDiffs");
516 const Array4<const Real>& mu_turb =
517 l_use_turb ? eddyDiffs->const_array(mfi) : Array4<const Real>{};
522 if (is_valid_slow_var[ivar])
528 horiz_adv_type =
ac.moistscal_horiz_adv_type;
529 vert_adv_type =
ac.moistscal_vert_adv_type;
530 horiz_upw_frac =
ac.moistscal_horiz_upw_frac;
531 vert_upw_frac =
ac.moistscal_vert_upw_frac;
533 if (
ac.use_efficient_advection){
538 num_comp = n_qstate_total;
547 horiz_adv_type =
ac.dryscal_horiz_adv_type;
548 vert_adv_type =
ac.dryscal_vert_adv_type;
549 horiz_upw_frac =
ac.dryscal_horiz_upw_frac;
550 vert_upw_frac =
ac.dryscal_vert_upw_frac;
552 if (
ac.use_efficient_advection){
562 const int group_end = start_comp + num_comp;
563 for (
int run_start = start_comp; run_start < group_end; ) {
565 const int diagnostic_comp = run_start;
566 ParallelFor(tbx, [=] AMREX_GPU_DEVICE (
int i,
int j,
int k) noexcept {
567 cell_rhs(i,j,k,diagnostic_comp) =
zero;
572 start_comp = run_start;
574 while (start_comp + num_comp < group_end &&
578 run_start += num_comp;
583 if (!l_eb_terrain_cc){
589 avg_xmom_arr, avg_ymom_arr, avg_zmom_arr,
591 detJ_arr,
dxInv, mf_mx, mf_my,
592 horiz_adv_type, vert_adv_type,
593 horiz_upw_frac, vert_upw_frac,
594 flx_arr, domain, bc_ptr_h);
601 avg_xmom_arr, avg_ymom_arr, avg_zmom_arr,
603 mask_arr, cfg_arr, ax_arr, ay_arr, az_arr,
604 fcx_arr, fcy_arr, fcz_arr,
605 detJ_arr,
dxInv, mf_mx, mf_my,
606 horiz_adv_type, vert_adv_type,
607 horiz_upw_frac, vert_upw_frac,
608 flx_arr, domain, bc_ptr_h,
609 already_on_centroids);
626 const bool componentwise_moisture =
627 use_physical_chamber_wall_flux && ivar ==
RhoQ1_comp;
628 const int n_diff_calls = componentwise_moisture ? n_qstate_total : 1;
629 for (
int qstate = 0; qstate < n_diff_calls; ++qstate) {
630 const int state_comp = componentwise_moisture ?
632 const int diffusion_start = state_comp;
633 const int diffusion_num = componentwise_moisture ? 1 : num_comp;
635 sbm_active, diffusion_start, diffusion_num,
637 const int flux_comp = componentwise_moisture ? qstate : 0;
642 const Array4<Real> diffusion_x = dflux_x->array(mfi, flux_comp);
643 const Array4<Real> diffusion_y = dflux_y->array(mfi, flux_comp);
644 const Array4<Real> diffusion_z = dflux_z->array(mfi, flux_comp);
646 if (solverChoice.
mesh_type == MeshType::StretchedDz) {
648 new_cons, cur_prim, cell_rhs,
649 diffusion_x, diffusion_y, diffusion_z,
650 stretched_dz_d,
dxInv,
653 hfx_x, hfx_y, hfx_z, q1fx_x, q1fx_y, q1fx_z,q2fx_z,
654 mu_turb, solverChoice, level,
658 }
else if (l_use_terrain) {
660 new_cons, cur_prim, cell_rhs,
661 diffusion_x, diffusion_y, diffusion_z,
662 z_nd, z_cc, ax_arr, ay_arr, az_arr,
666 hfx_x, hfx_y, hfx_z, q1fx_x, q1fx_y, q1fx_z,q2fx_z,
667 mu_turb, solverChoice, level,
671 }
else if (l_use_eb) {
673 new_cons, cur_prim, cell_rhs,
674 diffusion_x, diffusion_y, diffusion_z,
675 cfg_arr, ax_arr, ay_arr, az_arr, detJ_arr,
676 barea_arr, bcent_arr,
678 hfx_z, q1fx_z, q2fx_z, hfx_EB,
679 mu_turb, solverChoice, level,
680 bc_ptr_d, l_apply_surface_layer_fluxes_in_diffusion, SurfLayer);
683 new_cons, cur_prim, cell_rhs,
684 diffusion_x, diffusion_y, diffusion_z,
dxInv,
687 hfx_x, hfx_y, hfx_z, q1fx_x, q1fx_y, q1fx_z, q2fx_z,
688 mu_turb, solverChoice, level,
692 (ib_wall_face33) ? ib_wall_face33->const_array(mfi) : Array4<const Real>{});
694 if (use_physical_chamber_wall_flux) {
703 tbx, domain, state_comp, flux_comp, new_cons, cur_prim,
704 cloud_chamber_base_state->const_array(mfi), u, v,
w, cell_rhs,
705 diffflux_x, diffflux_y, diffflux_z,
dxInv,
720 if (l_use_diff && is_valid_slow_var[
RhoKE_comp])
722 const Array4<const Real> tm_arr = t_mean_mf ? t_mean_mf->const_array(mfi) : Array4<const Real>{};
724 if (solverChoice.
mesh_type == MeshType::StretchedDz) {
726 domain.smallEnd(2), domain.bigEnd(2)};
728 SmnSmn_a, hfx_z, q1fx_z, diss,
tau13,
tau23, mu_turb,
729 solverChoice, level, tm_arr, grav_gpu, bc_ptr_d,
730 l_apply_surface_layer_fluxes_in_diffusion, SurfLayer, pbl_dz_inv);
731 }
else if (l_use_terrain) {
734 SmnSmn_a, hfx_z, q1fx_z, diss,
tau13,
tau23, mu_turb,
735 solverChoice, level, tm_arr, grav_gpu, bc_ptr_d,
736 l_apply_surface_layer_fluxes_in_diffusion, SurfLayer, pbl_dz_inv);
737 }
else if (!l_use_eb) {
740 SmnSmn_a, hfx_z, q1fx_z, diss,
tau13,
tau23, mu_turb,
741 solverChoice, level, tm_arr, grav_gpu, bc_ptr_d,
742 l_apply_surface_layer_fluxes_in_diffusion, SurfLayer, pbl_dz_inv);
746 #ifdef ERF_USE_EAMXX_SHOC
748 eamxx_shoc_lev->add_slow_tend(mfi,tbx,cell_rhs);
753 BL_PROFILE(
"rhs_post_8");
757 auto const& src_arr = source.const_array(mfi);
761 if (is_valid_slow_var[ivar])
766 num_comp = n_qstate_total;
779 if (l_moving_terrain)
784 [=] AMREX_GPU_DEVICE (
int i,
int j,
int k,
int nn) noexcept {
785 const int n = start_comp +
nn;
787 cell_rhs(i,j,k,n) += src_arr(i,j,k,n);
788 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);
789 cur_cons(i,j,k,n) = temp_val / detJ_new_arr(i,j,k);
791 cur_cons(i,j,k,n) /= (
one + dt * diss(i,j,k) / amrex::max(old_cons(i,j,k,n), eps));
795 }
else if (l_anelastic && l_anelastic_rk2 && (nrk == 1)) {
800 [=] AMREX_GPU_DEVICE (
int i,
int j,
int k,
int nn) noexcept {
801 const int n = start_comp +
nn;
803 cell_rhs(i,j,k,n) += src_arr(i,j,k,n);
806 Real dt_times_old_cell_rhs = cur_cons(i,j,k,n) - old_cons(i,j,k,n);
809 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));
813 cur_cons(i,j,k,n) /= (
one +
myhalf * dt * diss(i,j,k) / amrex::max(old_cons(i,j,k,n), eps));
822 [=] AMREX_GPU_DEVICE (
int i,
int j,
int k,
int nn) noexcept {
823 const int n = start_comp +
nn;
825 cell_rhs(i,j,k,n) += src_arr(i,j,k,n);
826 cur_cons(i,j,k,n) = old_cons(i,j,k,n) + dt * cell_rhs(i,j,k,n);
828 cur_cons(i,j,k,n) /= (
one + dt * diss(i,j,k) / amrex::max(old_cons(i,j,k,n), eps));
841 const Array4<const Real>& kt = ib_wall_ktarget->const_array(mfi);
842 ParallelFor(tbx, [=] AMREX_GPU_DEVICE (
int i,
int j,
int k) noexcept {
843 if (kt(i,j,k) >=
zero) {
851 const int klo = domain.smallEnd(2);
852 if (tbx.smallEnd(2) <=
klo && tbx.bigEnd(2) >=
klo) {
853 ParallelFor(makeSlab(tbx,2,
klo), [=] AMREX_GPU_DEVICE (
int i,
int j,
int k) noexcept {
868 BL_PROFILE(
"rhs_post_9");
872 [=] AMREX_GPU_DEVICE (
int i,
int j,
int k,
int n) noexcept {
873 new_cons(i,j,k,n) = cur_cons(i,j,k,n);
877 Box xtbx = mfi.nodaltilebox(0);
878 Box ytbx = mfi.nodaltilebox(1);
879 Box ztbx = mfi.nodaltilebox(2);
882 BL_PROFILE(
"rhs_post_10()");
883 if (l_anelastic && terrain_blank) {
890 [=] AMREX_GPU_DEVICE (
int i,
int j,
int k) noexcept {
892 Real t_blank = (t_blank_xface_arr) ? t_blank_xface_arr(i, j, k) :
893 myhalf * (t_blank_arr(i, j, k) + t_blank_arr(i-1, j, k));
894 if (l_freeze_mom && t_blank ==
one) {
895 new_xmom(i,j,k) =
zero;
897 new_xmom(i,j,k) = cur_xmom(i,j,k);
900 [=] AMREX_GPU_DEVICE (
int i,
int j,
int k) noexcept {
902 Real t_blank = (t_blank_yface_arr) ? t_blank_yface_arr(i, j, k) :
903 myhalf * (t_blank_arr(i, j, k) + t_blank_arr(i, j-1, k));
904 if (l_freeze_mom && t_blank ==
one) {
905 new_ymom(i,j,k) =
zero;
907 new_ymom(i,j,k) = cur_ymom(i,j,k);
910 [=] AMREX_GPU_DEVICE (
int i,
int j,
int k) noexcept {
912 Real t_blank = (t_blank_zface_arr) ? t_blank_zface_arr(i, j, k) :
913 myhalf * (t_blank_arr(i, j, k) + t_blank_arr(i, j, k-1));
914 if (l_freeze_mom && t_blank ==
one) {
915 new_zmom(i,j,k) =
zero;
917 new_zmom(i,j,k) = cur_zmom(i,j,k);
921 [=] AMREX_GPU_DEVICE (
int i,
int j,
int k) noexcept {
922 Real t_blank = t_blank_arr(i, j, k );
923 if (t_blank ==
one) {
930 [=] AMREX_GPU_DEVICE (
int i,
int j,
int k) noexcept {
931 new_xmom(i,j,k) = cur_xmom(i,j,k);
933 [=] AMREX_GPU_DEVICE (
int i,
int j,
int k) noexcept {
934 new_ymom(i,j,k) = cur_ymom(i,j,k);
936 [=] AMREX_GPU_DEVICE (
int i,
int j,
int k) noexcept {
937 new_zmom(i,j,k) = cur_zmom(i,j,k);
943 BL_PROFILE(
"rhs_post_10");
947 int num_comp_reflux =
nvars - strt_comp_reflux;
948 if (level < finest_level) {
949 fr_as_crse->CrseAdd(mfi,
950 {{AMREX_D_DECL(&(flux[0]), &(flux[1]), &(flux[2]))}},
951 dx, l_reflux_dt, strt_comp_reflux, strt_comp_reflux, num_comp_reflux, RunOn::Device);
954 fr_as_fine->FineAdd(mfi,
955 {{AMREX_D_DECL(&(flux[0]), &(flux[1]), &(flux[2]))}},
956 dx, l_reflux_dt, strt_comp_reflux, strt_comp_reflux, num_comp_reflux, RunOn::Device);
962 Gpu::streamSynchronize();
968 if (cloud_budget && l_use_diff && n_qstate > 0) {
969 bool use_trapezoidal = (!l_anelastic || l_anelastic_rk2);
970 for (
int qstate = 0; qstate < n_qstate; ++qstate) {
971 MultiFab qflux_x(*dflux_x, make_alias, qstate, 1);
972 MultiFab qflux_y(*dflux_y, make_alias, qstate, 1);
973 MultiFab qflux_z(*dflux_z, make_alias, qstate, 1);
976 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:49
@ tau13
Definition: ERF_DataStruct.H:49
@ nvars
Definition: ERF_DataStruct.H:207
@ v_x
Definition: ERF_DataStruct.H:38
@ u_y
Definition: ERF_DataStruct.H:39
@ v_y
Definition: ERF_DataStruct.H:39
@ m_y
Definition: ERF_DataStruct.H:39
@ u_x
Definition: ERF_DataStruct.H:38
@ m_x
Definition: ERF_DataStruct.H:38
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, const ScalarDiffusionRefluxViews *reflux_flx=nullptr)
Native adapter for regular scalar diffusion on a vertically stretched grid.
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_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, const ScalarDiffusionRefluxViews *reflux_flx=nullptr, const amrex::Array4< const amrex::Real > &wall_face33=amrex::Array4< const amrex::Real >{}, const amrex::Array4< const amrex::Real > &wall_hfx=amrex::Array4< const amrex::Real >{})
Add regular-grid state diffusion on a uniform grid without terrain.
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 amrex::BCRec *bc_ptr_h, const bool use_SurfLayer, const amrex::Vector< std::unique_ptr< SurfaceLayer >> &SurfLayer, const amrex::Real implicit_fac, const ScalarDiffusionRefluxViews *reflux_flx=nullptr)
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:57
#define Rho_comp
Definition: ERF_IndexDefines.H:53
#define RhoTheta_comp
Definition: ERF_IndexDefines.H:54
#define NSCALARS
Definition: ERF_IndexDefines.H:26
#define RhoQ1_comp
Definition: ERF_IndexDefines.H:66
AdvType
Definition: ERF_IndexDefines.H:352
#define RhoKE_comp
Definition: ERF_IndexDefines.H:55
amrex::GpuArray< Real, AMREX_SPACEDIM > dxInv
Definition: ERF_InitCustomPertVels_ParticleTests.H:17
const Real dx
Definition: ERF_InitCustomPert_ABL.H:44
AMREX_ALWAYS_ASSERT_WITH_MESSAGE(axis >=0 &&axis< AMREX_SPACEDIM, "prob.axis must be 0, 1 or 2")
AMREX_ALWAYS_ASSERT(bx.length()[2]==khi+1)
const int klo
Definition: ERF_InitCustomPert_KE.H:9
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:23
amrex::GpuArray< const amrex::Array4< amrex::Real >, AMREX_SPACEDIM > ScalarDiffusionRefluxViews
Definition: ERF_ScalarDiffusion.H:1581
const bool l_dirichlet_k
Definition: ERF_ScalarLimitPost.H:21
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:124
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:274
@ cons
Definition: ERF_IndexDefines.H:272
@ zmom
Definition: ERF_IndexDefines.H:275
@ xmom
Definition: ERF_IndexDefines.H:273
@ None
Definition: ERF_LSM_Types.H:6
@ ng
Definition: ERF_Morrison.H:51
@ nn
Definition: ERF_WDM6.H:33
@ xvel
Definition: ERF_IndexDefines.H:255
@ zvel
Definition: ERF_IndexDefines.H:257
@ yvel
Definition: ERF_IndexDefines.H:256
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:24
MolecDiffType molec_diff_type
Selected molecular transport model.
Definition: ERF_DiffStruct.H:96
amrex::Real alpha_C
Kinematic scalar diffusivity [m2/s].
Definition: ERF_DiffStruct.H:100
AMREX_GPU_HOST_DEVICE AMREX_FORCE_INLINE bool host_transports(int n) const noexcept
Definition: ERF_DiffStruct.H:121
amrex::Real alpha_T
Kinematic temperature diffusivity [m2/s].
Definition: ERF_DiffStruct.H:99
int qr
rain
Definition: ERF_DataStruct.H:265
int qc
cloud liquid water
Definition: ERF_DataStruct.H:263
Functor for inverse vertical spacings with constant grid spacing.
Definition: ERF_PBLModels.H:624
Functor for inverse vertical spacings for stretched grids using a spacing array.
Definition: ERF_PBLModels.H:642
Functor for inverse vertical spacings for terrain-following grids using cell-center heights.
Definition: ERF_PBLModels.H:668
amrex::Vector< TurbChoice > turbChoice
Turbulence options for each AMR level.
Definition: ERF_DataStruct.H:2620
amrex::Real gravity
Effective gravitational acceleration.
Definition: ERF_DataStruct.H:2736
bool implicit_moisture_diffusion
Whether implicit vertical moisture diffusion is included.
Definition: ERF_DataStruct.H:2661
MoistureType moisture_type
Moisture or microphysics model.
Definition: ERF_DataStruct.H:2942
bool sbm_test_native_qc_write_fault
Definition: ERF_DataStruct.H:2946
bool use_rotate_surface_flux
Whether MOST surface fluxes are rotated with terrain.
Definition: ERF_DataStruct.H:2784
bool implicit_ke_diffusion
Whether implicit vertical TKE diffusion is included.
Definition: ERF_DataStruct.H:2662
bool if_implicit_projection
Definition: ERF_DataStruct.H:2704
amrex::Real if_wall_tke_time_factor
1 (the default) pins the wall cell after every stage and in the implicit TKE solve; a larger value re...
Definition: ERF_DataStruct.H:2717
amrex::Real rdOcp
Ratio of dry-air gas constant to c_p.
Definition: ERF_DataStruct.H:2738
static MeshType mesh_type
Vertical mesh representation.
Definition: ERF_DataStruct.H:2604
AdvChoice advChoice
Advection-related options.
Definition: ERF_DataStruct.H:2616
amrex::Vector< int > anelastic
Per-level flag selecting anelastic dynamics.
Definition: ERF_DataStruct.H:2629
amrex::Vector< AnelasticType > anelastic_type
Per-level two-stage scheme used by the anelastic integrator.
Definition: ERF_DataStruct.H:2630
amrex::Vector< amrex::Vector< amrex::Real > > vert_implicit_fac
Per-level, per-stage implicit vertical diffusion factors.
Definition: ERF_DataStruct.H:2657
bool transport_scalar
Whether the passive scalar component is transported.
Definition: ERF_DataStruct.H:2795
static TerrainType terrain_type
Terrain or immersed-boundary representation.
Definition: ERF_DataStruct.H:2589
bool sbm_test_donor_cfl_fault
Definition: ERF_DataStruct.H:2947
DiffChoice diffChoice
Diffusion-related options.
Definition: ERF_DataStruct.H:2617
MoistureComponentIndices moisture_indices
Index map of the moisture data carried by the active scheme: conserved-state components for the speci...
Definition: ERF_DataStruct.H:2993
Definition: ERF_TurbStruct.H:119
bool advect_tke
Whether TKE/QKE is advected.
Definition: ERF_TurbStruct.H:1065
bool implicit_tke_dissipation
Definition: ERF_TurbStruct.H:888
bool use_tke
Whether any TKE or QKE closure is active.
Definition: ERF_TurbStruct.H:983
RANSType rans_type
Selected RANS closure.
Definition: ERF_TurbStruct.H:877
bool use_keqn
Whether a microscale TKE closure is active.
Definition: ERF_TurbStruct.H:978
bool uses_eamxx_shoc() const noexcept
Query whether this level uses the EAMxx SHOC PBL scheme.
Definition: ERF_TurbStruct.H:915
bool uses_native_shoc() const noexcept
Query whether this level uses the native SHOC PBL scheme.
Definition: ERF_TurbStruct.H:924
bool dirichlet_k
Whether TKE uses Dirichlet boundary treatment.
Definition: ERF_TurbStruct.H:879
LESType les_type
Selected LES closure.
Definition: ERF_TurbStruct.H:826
bool use_kturb
Whether any turbulence model is active.
Definition: ERF_TurbStruct.H:977
PBLType pbl_type
Selected PBL closure.
Definition: ERF_TurbStruct.H:909
erf_wall_thermodynamics::Boundary wall_boundary() const noexcept
Collect thermodynamic boundary conditions for all chamber walls.
Definition: ERF_CloudChamber.H:62
bool has_moisture
Definition: ERF_CloudChamber.H:43
bool physical_initialization
Definition: ERF_CloudChamber.H:44