From 661c63059c77327001910850f2694fdd0584007f Mon Sep 17 00:00:00 2001 From: Zhaoyi Shen <11598433+szy21@users.noreply.github.com> Date: Fri, 1 Dec 2023 11:21:26 -0800 Subject: [PATCH] refactor vertical diffusion --- .../gpu_diagnostic_edmfx_aquaplanet.yml | 1 - .../flame_perf_target_diagnostic_edmfx.yml | 5 +- ...erf_target_prognostic_edmfx_aquaplanet.yml | 2 +- src/cache/precomputed_quantities.jl | 29 +++++- .../implicit/implicit_solver.jl | 69 ++++++------- .../vertical_diffusion_boundary_layer.jl | 98 ++++++------------- 6 files changed, 99 insertions(+), 105 deletions(-) diff --git a/config/gpu_configs/gpu_diagnostic_edmfx_aquaplanet.yml b/config/gpu_configs/gpu_diagnostic_edmfx_aquaplanet.yml index e378cb2c8a..b10022747e 100644 --- a/config/gpu_configs/gpu_diagnostic_edmfx_aquaplanet.yml +++ b/config/gpu_configs/gpu_diagnostic_edmfx_aquaplanet.yml @@ -1,5 +1,4 @@ job_id: gpu_diagnostic_edmfx_aquaplanet -vert_diff: "true" surface_setup: DefaultExchangeCoefficients rad: gray turbconv: diagnostic_edmfx diff --git a/config/perf_configs/flame_perf_target_diagnostic_edmfx.yml b/config/perf_configs/flame_perf_target_diagnostic_edmfx.yml index b69008ccb3..267290125c 100644 --- a/config/perf_configs/flame_perf_target_diagnostic_edmfx.yml +++ b/config/perf_configs/flame_perf_target_diagnostic_edmfx.yml @@ -1,9 +1,10 @@ dt_save_to_disk: "600secs" +vert_diff: "false" +turbconv: "diagnostic_edmfx" edmfx_entr_model: "Generalized" +edmfx_detr_model: "Generalized" edmfx_nh_pressure: true edmfx_upwinding: "first_order" prognostic_tke: true edmfx_sgs_flux: true -turbconv: "diagnostic_edmfx" job_id: "flame_perf_target_diagnostic_edmfx" -edmfx_detr_model: "Generalized" diff --git a/config/perf_configs/flame_perf_target_prognostic_edmfx_aquaplanet.yml b/config/perf_configs/flame_perf_target_prognostic_edmfx_aquaplanet.yml index d480952fa7..c650a8dff8 100644 --- a/config/perf_configs/flame_perf_target_prognostic_edmfx_aquaplanet.yml +++ b/config/perf_configs/flame_perf_target_prognostic_edmfx_aquaplanet.yml @@ -1,7 +1,7 @@ job_id: flame_perf_target_prognostic_edmfx_aquaplanet -vert_diff: "true" surface_setup: DefaultExchangeCoefficients rad: gray +vert_diff: "false" turbconv: prognostic_edmfx prognostic_tke: true edmfx_upwinding: first_order diff --git a/src/cache/precomputed_quantities.jl b/src/cache/precomputed_quantities.jl index 876bac8bfc..2331af0afa 100644 --- a/src/cache/precomputed_quantities.jl +++ b/src/cache/precomputed_quantities.jl @@ -40,6 +40,7 @@ function precomputed_quantities(Y, atmos) !(atmos.turbconv_model isa PrognosticEDMFX) @assert !(atmos.edmfx_detr_model isa ConstantAreaDetrainment) || !(atmos.turbconv_model isa DiagnosticEDMFX) + @assert isnothing(atmos.turbconv_model) || isnothing(atmos.vert_diff) TST = thermo_state_type(atmos.moisture_model, FT) SCT = SurfaceConditions.surface_conditions_type(atmos, FT) n = n_mass_flux_subdomains(atmos.turbconv_model) @@ -109,6 +110,12 @@ function precomputed_quantities(Y, atmos) ᶜK_h = similar(Y.c, FT), ρatke_flux = similar(Fields.level(Y.f, half), C3{FT}), ) : (;) + vert_diff_quantities = if atmos.vert_diff isa VerticalDiffusion + ᶜK_h = similar(Y.c, FT) + (; ᶜK_u = ᶜK_h, ᶜK_h) # ᶜK_u aliases ᶜK_h because they are always equal. + else + (;) + end precipitation_quantities = atmos.precip_model isa Microphysics1Moment ? (; ᶜwᵣ = similar(Y.c, FT), ᶜwₛ = similar(Y.c, FT)) : (;) @@ -116,6 +123,7 @@ function precomputed_quantities(Y, atmos) gs_quantities..., advective_sgs_quantities..., diagnostic_sgs_quantities..., + vert_diff_quantities..., precipitation_quantities..., ) end @@ -272,6 +280,13 @@ ts_sgs(thermo_params, moisture_model, specific, K, Φ, p) = thermo_state( p, ) +function eddy_diffusivity_coefficient(C_E, norm_v_a, z_a, p) + p_pbl = 85000 + p_strato = 10000 + K_E = C_E * norm_v_a * z_a + return p > p_pbl ? K_E : K_E * exp(-((p_pbl - p) / p_strato)^2) +end + """ set_precomputed_quantities!(Y, p, t) @@ -289,7 +304,7 @@ function instead of recomputing the value yourself. Otherwise, it will be difficult to ensure that the duplicated computations are consistent. """ NVTX.@annotate function set_precomputed_quantities!(Y, p, t) - (; moisture_model, turbconv_model, precip_model) = p.atmos + (; moisture_model, turbconv_model, vert_diff, precip_model) = p.atmos thermo_params = CAP.thermodynamics_params(p.params) n = n_mass_flux_subdomains(turbconv_model) thermo_args = (thermo_params, moisture_model) @@ -344,6 +359,18 @@ NVTX.@annotate function set_precomputed_quantities!(Y, p, t) set_diagnostic_edmf_precomputed_quantities_env_closures!(Y, p, t) end + if vert_diff isa VerticalDiffusion + (; ᶜK_h) = p.precomputed + interior_uₕ = Fields.level(Y.c.uₕ, 1) + ᶜΔz_surface = Fields.Δz_field(interior_uₕ) + @. ᶜK_h = eddy_diffusivity_coefficient( + p.atmos.vert_diff.C_E, + norm(interior_uₕ), + ᶜΔz_surface / 2, + ᶜp, + ) + end + if precip_model isa Microphysics1Moment set_precipitation_precomputed_quantities!(Y, p, t) end diff --git a/src/prognostic_equations/implicit/implicit_solver.jl b/src/prognostic_equations/implicit/implicit_solver.jl index 939ed7cb06..f7212ed603 100644 --- a/src/prognostic_equations/implicit/implicit_solver.jl +++ b/src/prognostic_equations/implicit/implicit_solver.jl @@ -161,9 +161,10 @@ function ImplicitEquationJacobian( (@name(c.ρe_tot), available_tracer_names...), )..., (@name(c.uₕ), @name(c.uₕ)) => - use_derivative(diffusion_flag) && - diffuse_momentum(atmos.vert_diff) ? - similar(Y.c, TridiagonalRow) : FT(-1) * I, + use_derivative(diffusion_flag) && ( + !isnothing(atmos.turbconv_model) || + diffuse_momentum(atmos.vert_diff) + ) ? similar(Y.c, TridiagonalRow) : FT(-1) * I, MatrixFields.unrolled_map( name -> (name, name) => FT(-1) * I, other_available_names, @@ -247,6 +248,11 @@ function Wfact!(A, Y, p, dtγ, t) p.precomputed.ᶠu³, p.precomputed.ᶜK, p.precomputed.ᶜp, + p.precomputed.ᶜh_tot, + ( + use_derivative(A.diffusion_flag) ? + (; p.precomputed.ᶜK_u, p.precomputed.ᶜK_h) : (;) + )..., p.core.∂ᶜK_∂ᶠu₃, p.core.ᶜΦ, p.core.ᶠgradᵥ_ᶜΦ, @@ -256,7 +262,6 @@ function Wfact!(A, Y, p, dtγ, t) p.scratch.ᶠtemp_scalar, p.params, p.atmos, - p.precomputed.ᶜh_tot, ( rayleigh_sponge isa RayleighSponge ? (; p.rayleigh_sponge.ᶠβ_rayleigh_w) : (;) @@ -511,41 +516,43 @@ function update_implicit_equation_jacobian!(A, Y, p, dtγ, colidx) ∂ᶜK_∂ᶠu₃[colidx] - (I_u₃,) end - # We can express the implicit diffusion tendency for scalars and horizontal - # velocity as - # ᶜρχₜ = ᶜadvdivᵥ(ᶠρK_E * ᶠgradᵥ(ᶜχ)) and - # ᶜuₕₜ = ᶜadvdivᵥ(ᶠρK_E * ᶠgradᵥ(ᶜuₕ)) / ᶜρ. + # We can express the implicit diffusion tendency for horizontal velocity and + # scalars as + # ᶜuₕₜ = ᶜadvdivᵥ(ᶠinterp(ᶜρ) * ᶠinterp(ᶜK_u) * ᶠgradᵥ(ᶜuₕ)) / ᶜρ and + # ᶜρχₜ = ᶜadvdivᵥ(ᶠinterp(ᶜρ) * ᶠinterp(ᶜK_h) * ᶠgradᵥ(ᶜχ)). + # The implicit diffusion tendency for horizontal velocity actually uses + # 2 * ᶠstrain_rate instead of ᶠgradᵥ(ᶜuₕ), but these are roughly equivalent. # The implicit diffusion tendency for density is the sum of the ᶜρχₜ's, but # we approximate the derivative of this sum with respect to ᶜρ as 0. # This means that - # ∂(ᶜρχₜ)/∂(ᶜρχ) = - # ᶜadvdivᵥ_matrix() ⋅ DiagonalMatrixRow(ᶠρK_E) ⋅ ᶠgradᵥ_matrix() ⋅ - # ∂(ᶜχ)/∂(ᶜρχ) and # ∂(ᶜuₕₜ)/∂(ᶜuₕ) = # DiagonalMatrixRow(1 / ᶜρ) ⋅ ᶜadvdivᵥ_matrix() ⋅ - # DiagonalMatrixRow(ᶠρK_E) ⋅ ᶠgradᵥ_matrix(). + # DiagonalMatrixRow(ᶠinterp(ᶜρ) * ᶠinterp(ᶜK_u)) ⋅ ᶠgradᵥ_matrix() and + # ∂(ᶜρχₜ)/∂(ᶜρχ) = + # ᶜadvdivᵥ_matrix() ⋅ DiagonalMatrixRow(ᶠinterp(ᶜρ) * ᶠinterp(ᶜK_h)) ⋅ + # ᶠgradᵥ_matrix() ⋅ ∂(ᶜχ)/∂(ᶜρχ). # In general, ∂(ᶜχ)/∂(ᶜρχ) = DiagonalMatrixRow(1 / ᶜρ), except for the case # ∂(ᶜh_tot)/∂(ᶜρe_tot) = # ∂((ᶜρe_tot + ᶜp) / ᶜρ)/∂(ᶜρe_tot) = # (I + ∂(ᶜp)/∂(ᶜρe_tot)) ⋅ DiagonalMatrixRow(1 / ᶜρ) ≈ # DiagonalMatrixRow((1 + R_d / cv_d) / ᶜρ). if use_derivative(diffusion_flag) - (; C_E) = p.atmos.vert_diff - ᶠp = ᶠρK_E = p.ᶠtemp_scalar - interior_uₕ = Fields.level(Y.c.uₕ, 1) - ᶜΔz_surface = Fields.Δz_field(interior_uₕ) - @. ᶠp[colidx] = ᶠinterp(ᶜp[colidx]) - @. ᶠρK_E[colidx] = - ᶠinterp(Y.c.ρ[colidx]) * eddy_diffusivity_coefficient( - C_E, - norm(interior_uₕ[colidx]), - ᶜΔz_surface[colidx] / 2, - ᶠp[colidx], - ) + if ( + !isnothing(p.atmos.turbconv_model) || + diffuse_momentum(p.atmos.vert_diff) + ) + ∂ᶜuₕ_err_∂ᶜuₕ = matrix[@name(c.uₕ), @name(c.uₕ)] + @. ∂ᶜuₕ_err_∂ᶜuₕ[colidx] = + dtγ * DiagonalMatrixRow(1 / ᶜρ[colidx]) ⋅ ᶜadvdivᵥ_matrix() ⋅ + DiagonalMatrixRow( + ᶠinterp(ᶜρ[colidx]) * ᶠinterp(p.ᶜK_u[colidx]), + ) ⋅ ᶠgradᵥ_matrix() - (I,) + end ∂ᶜρe_tot_err_∂ᶜρe_tot = matrix[@name(c.ρe_tot), @name(c.ρe_tot)] @. ∂ᶜρe_tot_err_∂ᶜρe_tot[colidx] = - dtγ * ᶜadvdivᵥ_matrix() ⋅ DiagonalMatrixRow(ᶠρK_E[colidx]) ⋅ + dtγ * ᶜadvdivᵥ_matrix() ⋅ + DiagonalMatrixRow(ᶠinterp(ᶜρ[colidx]) * ᶠinterp(p.ᶜK_h[colidx])) ⋅ ᶠgradᵥ_matrix() ⋅ DiagonalMatrixRow((1 + R_d / cv_d) / ᶜρ[colidx]) - (I,) @@ -560,15 +567,9 @@ function update_implicit_equation_jacobian!(A, Y, p, dtγ, colidx) MatrixFields.has_field(Y, ρχ_name) || return ∂ᶜρχ_err_∂ᶜρχ = matrix[ρχ_name, ρχ_name] @. ∂ᶜρχ_err_∂ᶜρχ[colidx] = - dtγ * ᶜadvdivᵥ_matrix() ⋅ DiagonalMatrixRow(ᶠρK_E[colidx]) ⋅ - ᶠgradᵥ_matrix() ⋅ DiagonalMatrixRow(1 / ᶜρ[colidx]) - (I,) - end - - if diffuse_momentum(p.atmos.vert_diff) - ∂ᶜuₕ_err_∂ᶜuₕ = matrix[@name(c.uₕ), @name(c.uₕ)] - @. ∂ᶜuₕ_err_∂ᶜuₕ[colidx] = - dtγ * DiagonalMatrixRow(1 / ᶜρ[colidx]) ⋅ ᶜadvdivᵥ_matrix() ⋅ - DiagonalMatrixRow(ᶠρK_E[colidx]) ⋅ ᶠgradᵥ_matrix() - (I,) + dtγ * ᶜadvdivᵥ_matrix() ⋅ DiagonalMatrixRow( + ᶠinterp(ᶜρ[colidx]) * ᶠinterp(p.ᶜK_h[colidx]), + ) ⋅ ᶠgradᵥ_matrix() ⋅ DiagonalMatrixRow(1 / ᶜρ[colidx]) - (I,) end end end diff --git a/src/prognostic_equations/vertical_diffusion_boundary_layer.jl b/src/prognostic_equations/vertical_diffusion_boundary_layer.jl index a949eb9617..985740ab3f 100644 --- a/src/prognostic_equations/vertical_diffusion_boundary_layer.jl +++ b/src/prognostic_equations/vertical_diffusion_boundary_layer.jl @@ -13,43 +13,6 @@ import ClimaCore.Geometry as Geometry import ClimaCore.Fields as Fields import ClimaCore.Operators as Operators -# Apply on potential temperature and moisture -# 1) turn the liquid_theta into theta version -# 2) have a total energy version (primary goal) - -function eddy_diffusivity_coefficient(C_E::FT, norm_v_a, z_a, p) where {FT} - p_pbl = FT(85000) - p_strato = FT(10000) - K_E = C_E * norm_v_a * z_a - return p > p_pbl ? K_E : K_E * exp(-((p_pbl - p) / p_strato)^2) -end - -function surface_thermo_state( - ::GCMSurfaceThermoState, - thermo_params, - T_sfc, - ts_int, - t, -) - ρ_sfc = - TD.air_density(thermo_params, ts_int) * - ( - T_sfc / TD.air_temperature(thermo_params, ts_int) - )^( - TD.cv_m(thermo_params, ts_int) / - TD.gas_constant_air(thermo_params, ts_int) - ) - q_sfc = - TD.q_vap_saturation_generic(thermo_params, T_sfc, ρ_sfc, TD.Liquid()) - if ts_int isa TD.PhaseDry - return TD.PhaseDry_ρT(thermo_params, ρ_sfc, T_sfc) - elseif ts_int isa TD.PhaseEquil - return TD.PhaseEquil_ρTq(thermo_params, ρ_sfc, T_sfc, q_sfc) - else - error("Unsupported thermo option") - end -end - function vertical_diffusion_boundary_layer_tendency!(Yₜ, Y, p, t) Fields.bycolumn(axes(Y.c.uₕ)) do colidx (; vert_diff) = p.atmos @@ -75,45 +38,43 @@ function vertical_diffusion_boundary_layer_tendency!( colidx, ::VerticalDiffusion, ) - ᶜρ = Y.c.ρ - FT = Spaces.undertype(axes(ᶜρ)) - (; ᶜp, ᶜspecific, sfc_conditions) = p.precomputed # assume ᶜts and ᶜp have been updated - (; C_E) = p.atmos.vert_diff - + FT = eltype(Y) + (; ᶜu, ᶜh_tot, ᶜspecific, ᶜK_u, ᶜK_h, sfc_conditions) = p.precomputed ᶠgradᵥ = Operators.GradientC2F() # apply BCs to ᶜdivᵥ, which wraps ᶠgradᵥ - FT = eltype(Y) - interior_uₕ = Fields.level(Y.c.uₕ, 1) - ᶠp = ᶠρK_E = p.scratch.ᶠtemp_scalar - @. ᶠp[colidx] = ᶠinterp(ᶜp[colidx]) - ᶜΔz_surface = Fields.Δz_field(interior_uₕ) - @. ᶠρK_E[colidx] = - ᶠinterp(Y.c.ρ[colidx]) * eddy_diffusivity_coefficient( - C_E, - norm(interior_uₕ[colidx]), - ᶜΔz_surface[colidx] / 2, - ᶠp[colidx], + if diffuse_momentum(p.atmos.vert_diff) + ᶠstrain_rate = p.scratch.ᶠtemp_UVWxUVW + compute_strain_rate_face!(ᶠstrain_rate[colidx], ᶜu[colidx]) + @. Yₜ.c.uₕ[colidx] -= C12( + ᶜdivᵥ( + -2 * + ᶠinterp(Y.c.ρ[colidx]) * + ᶠinterp(ᶜK_u[colidx]) * + ᶠstrain_rate[colidx], + ) / Y.c.ρ[colidx], ) - if diffuse_momentum(p.atmos.vert_diff) + # apply boundary condition for momentum flux ᶜdivᵥ_uₕ = Operators.DivergenceF2C( top = Operators.SetValue(C3(FT(0)) ⊗ C12(FT(0), FT(0))), bottom = Operators.SetValue(sfc_conditions.ρ_flux_uₕ[colidx]), ) @. Yₜ.c.uₕ[colidx] -= - ᶜdivᵥ_uₕ(-(ᶠρK_E[colidx] * ᶠgradᵥ(Y.c.uₕ[colidx]))) / Y.c.ρ[colidx] + ᶜdivᵥ_uₕ(-(FT(0) * ᶠgradᵥ(Y.c.uₕ[colidx]))) / Y.c.ρ[colidx] end - if :ρe_tot in propertynames(Y.c) - (; ᶜh_tot) = p.precomputed + ᶜdivᵥ_ρe_tot = Operators.DivergenceF2C( + top = Operators.SetValue(C3(FT(0))), + bottom = Operators.SetValue(sfc_conditions.ρ_flux_h_tot[colidx]), + ) + @. Yₜ.c.ρe_tot[colidx] -= ᶜdivᵥ_ρe_tot( + -( + ᶠinterp(Y.c.ρ[colidx]) * + ᶠinterp(ᶜK_h[colidx]) * + ᶠgradᵥ(ᶜh_tot[colidx]) + ), + ) - ᶜdivᵥ_ρe_tot = Operators.DivergenceF2C( - top = Operators.SetValue(C3(FT(0))), - bottom = Operators.SetValue(sfc_conditions.ρ_flux_h_tot[colidx]), - ) - @. Yₜ.c.ρe_tot[colidx] -= - ᶜdivᵥ_ρe_tot(-(ᶠρK_E[colidx] * ᶠgradᵥ(ᶜh_tot[colidx]))) - end ᶜρχₜ_diffusion = p.scratch.ᶜtemp_scalar ρ_flux_χ = p.scratch.sfc_temp_C3 for (ᶜρχₜ, ᶜχ, χ_name) in matching_subfields(Yₜ.c, ᶜspecific) @@ -127,8 +88,13 @@ function vertical_diffusion_boundary_layer_tendency!( top = Operators.SetValue(C3(FT(0))), bottom = Operators.SetValue(ρ_flux_χ[colidx]), ) - @. ᶜρχₜ_diffusion[colidx] = - ᶜdivᵥ_ρχ(-(ᶠρK_E[colidx] * ᶠgradᵥ(ᶜχ[colidx]))) + @. ᶜρχₜ_diffusion[colidx] = ᶜdivᵥ_ρχ( + -( + ᶠinterp(Y.c.ρ[colidx]) * + ᶠinterp(ᶜK_h[colidx]) * + ᶠgradᵥ(ᶜχ[colidx]) + ), + ) @. ᶜρχₜ[colidx] -= ᶜρχₜ_diffusion[colidx] @. Yₜ.c.ρ[colidx] -= ᶜρχₜ_diffusion[colidx] end