Fix turbInflow

Exec/RegTests/TurbInflow/input.3d_BoxLoZ

@@ -0,0 +1,78 @@
+#----------------------DOMAIN DEFINITION------------------------
+geometry.is_periodic = 1 1 0              # For each dir, 0: non-perio, 1: periodic
+geometry.coord_sys   = 0                  # 0 => cart, 1 => RZ
+geometry.prob_lo     = 0.0 0.0 0.0        # x_lo y_lo (z_lo)
+geometry.prob_hi     = 0.01 0.01 0.01  # x_hi y_hi (z_hi)
+
+# >>>>>>>>>>>>>  BC FLAGS <<<<<<<<<<<<<<<<
+# Interior, Inflow, Outflow, Symmetry,
+# SlipWallAdiab, NoSlipWallAdiab, SlipWallIsotherm, NoSlipWallIsotherm
+peleLM.lo_bc = Interior Interior Inflow
+peleLM.hi_bc = Interior Interior Outflow
+
+
+#-------------------------AMR CONTROL----------------------------
+amr.n_cell          = 32 32 32         # Level 0 number of cells in each direction   
+amr.v               = 1                # AMR verbose
+amr.max_level       = 1                # maximum level number allowed
+amr.ref_ratio       = 2 2 2 2          # refinement ratio
+amr.regrid_int      = 2                # how often to regrid
+amr.n_error_buf     = 0 1 2 2          # number of buffer cells in error est
+amr.grid_eff        = 0.7              # what constitutes an efficient grid
+amr.blocking_factor = 16               # block factor in grid generation (min box size)
+amr.max_grid_size   = 64               # max box size
+
+
+#--------------------------- Problem -------------------------------
+prob.T_mean = 298.0
+prob.P_mean = 101325.0
+prob.flowDir = 2
+prob.flowMag = 5
+
+prob.turb_file = TurbFileHIT/TurbTEST
+prob.turb_scale_loc = 633.151
+prob.turb_scale_vel = 0.5
+prob.turb_center = 0.005 0.005
+prob.turb_conv_vel = 5.
+prob.turb_nplane = 32
+
+#------------  INPUTS TO CONSTANT TRANSPORT -----------------
+transport.const_viscosity        = 0.0001 
+transport.const_bulk_viscosity   = 0.0 
+transport.const_conductivity     = 0.0 
+transport.const_diffusivity      = 0.0001
+
+#-------------------------PeleLM CONTROL----------------------------
+peleLM.v = 1
+peleLM.incompressible = 0
+peleLM.rho = 1.17
+peleLM.mu = 0.0
+peleLM.sdc_iterMax = 1
+peleLM.floor_species = 0
+peleLM.num_divu_iter = 1
+peleLM.num_init_iter = 3
+
+peleLM.do_temporals = 1
+peleLM.temporal_int = 2
+peleLM.mass_balance = 1
+
+amr.plot_int = 10
+amr.max_step = 300
+amr.dt_shrink = 0.1
+amr.stop_time = 0.02
+amr.cfl = 0.5
+amr.derive_plot_vars = avg_pressure mag_vort mass_fractions
+
+#--------------------REFINEMENT CONTROL------------------------
+amr.refinement_indicators = loBoxZ
+#amr.O2.max_level     = 1
+#amr.O2.value_greater = 0.4
+#amr.O2.field_name    = Y(O2)
+
+amr.loBoxZ.in_box_lo = 0.0 0.0 0.0
+amr.loBoxZ.in_box_hi = 0.01 0.01 0.005
+
+fabarray.mfiter_tile_size = 1024 1024 1024
+#amrex.fpe_trap_invalid = 1
+#amrex.fpe_trap_zero = 1
+#amrex.fpe_trap_overflow = 1

Exec/RegTests/TurbInflow/pelelm_prob.H

@@ -105,10 +105,9 @@ bcnormal(
 
     auto eos = pele::physics::PhysicsType::eos();
 
-    AMREX_D_TERM(s_ext[VELX] = 0.0;,
-                 s_ext[VELY] = 0.0;,
-                 s_ext[VELZ] = 0.0);
-    s_ext[prob_parm.meanFlowDir] =  prob_parm.meanFlowMag;
+    // When using PELE_USE_TURBINFLOW, s_ext comes in with
+    // turbulence data. Only add the mean flow here.
+    s_ext[prob_parm.meanFlowDir] +=  prob_parm.meanFlowMag;
 
     massfrac[O2_ID] = 0.233;
     massfrac[N2_ID] = 0.767;

Source/PeleLM.H

@@ -492,7 +492,7 @@ class PeleLM : public amrex::AmrCore {
    void setInflowBoundaryVel (amrex::MultiFab &a_vel, int lev, PeleLM::TimeStamp a_time);
 
 #ifdef PELE_USE_TURBINFLOW
-   void fillTurbInflow(amrex::MultiFab &a_vel, int lev, const amrex::Real a_time);
+   void fillTurbInflow(amrex::MultiFab &a_vel, int vel_comp, int lev, const amrex::Real a_time);
 #endif
 
    // Average down operations

Source/PeleLMBCfill.H

@@ -56,9 +56,7 @@ struct PeleLMCCFillExtDirState
 #ifdef PELE_USE_TURBINFLOW
                // If using TurbInflow, pass in the turbulent data. User can overwrite if needed
                if ( n >= VELX && n < DENSITY ) {
-                  for (int n = 0; n < AMREX_SPACEDIM; n++) {
-                     s_ext[VELX+n] = vel(iv,n);
-                  }
+                  s_ext[VELX+n] = state(iv,VELX+n);
                }
 #endif
                // bcnormal() is defined in pelelm_prob.H in problem directory in /Exec
@@ -81,9 +79,7 @@ struct PeleLMCCFillExtDirState
 #ifdef PELE_USE_TURBINFLOW
                // If using TurbInflow, pass in the turbulent data. User can overwrite if needed
                if ( n >= VELX && n < DENSITY ) {
-                  for (int n = 0; n < AMREX_SPACEDIM; n++) {
-                     s_ext[VELX+n] = vel(iv,n);
-                  }
+                  s_ext[VELX+n] = state(iv,VELX+n);
                }
 #endif
                // bcnormal() is defined in pelelm_prob.H in problem directory in /Exec
@@ -139,31 +135,33 @@ struct PeleLMCCFillExtDirVel
          // Low
          if ((bc[idir] == amrex::BCType::ext_dir) and (iv[idir] < domlo[idir])) {
 
+#ifdef PELE_USE_TURBINFLOW
+            // If using TurbInflow, pass in the turbulent data. User can overwrite if needed
+            for (int n = 0; n < AMREX_SPACEDIM; n++) {
+               s_ext[VELX+n] = vel(iv,VELX+n);
+            }
+#endif
             // bcnormal() is defined in pelelm_prob.H in problem directory in /Exec
             bcnormal(x, m_nAux, s_ext, idir, 1, time, geom, *lprobparm, lpmfdata);
 
             for (int n = 0; n < AMREX_SPACEDIM; n++) {
-#ifdef PELE_USE_TURBINFLOW
-               vel(iv,n) += s_ext[VELX+n];
-#else
                vel(iv,n) = s_ext[VELX+n];
-#endif
             }
-
          // High
          } else if ((bc[idir+AMREX_SPACEDIM] == amrex::BCType::ext_dir) and (iv[idir] > domhi[idir])) {
 
+#ifdef PELE_USE_TURBINFLOW
+            // If using TurbInflow, pass in the turbulent data. User can overwrite if needed
+            for (int n = 0; n < AMREX_SPACEDIM; n++) {
+               s_ext[VELX+n] = vel(iv,VELX+n);
+            }
+#endif
             // bcnormal() is defined in pelelm_prob.H in problem directory in /Exec
             bcnormal(x, m_nAux, s_ext, idir, -1, time, geom, *lprobparm, lpmfdata);
 
             for (int n = 0; n < AMREX_SPACEDIM; n++) {
-#ifdef PELE_USE_TURBINFLOW
-               vel(iv,n) += s_ext[VELX+n];
-#else
                vel(iv,n) = s_ext[VELX+n];
-#endif
             }
-
          }
       }
    }

Source/PeleLMSetup.cpp

@@ -592,6 +592,7 @@ void PeleLM::taggingSetup()
          itexists = derive_lst.canDerive(field) || isStateVariable(field);
       } else if (realbox.ok()) {
         errTags.push_back(AMRErrorTag(info));
+        itexists = true;
       } else {
         Abort(std::string("Unrecognized refinement indicator for " + refinement_indicators[n]).c_str());
       }