Actual source code: ex2.c

  1: static char help[] = "Runaway electron model with Landau collision operator\n\n";

  3: #include <petscdmplex.h>
  4: #include <petsclandau.h>
  5: #include <petscts.h>
  6: #include <petscds.h>
  7: #include <petscdmcomposite.h>
  8: #include "petsc/private/petscimpl.h"

 10: #if defined(PETSC_HAVE_CUDA_NVTX)
 11:   #include <nvToolsExt.h>
 12: #endif

 14: /* data for runaway electron model */
 15: typedef struct REctx_struct {
 16:   PetscErrorCode (*test)(TS, Vec, PetscInt, PetscReal, PetscBool, LandauCtx *, struct REctx_struct *);
 17:   PetscErrorCode (*impuritySrcRate)(PetscReal, PetscReal *, LandauCtx *);
 18:   PetscErrorCode (*E)(Vec, Vec, PetscInt, PetscReal, LandauCtx *, PetscReal *);
 19:   PetscReal T_cold;        /* temperature of newly ionized electrons and impurity ions */
 20:   PetscReal ion_potential; /* ionization potential of impurity */
 21:   PetscReal Ne_ion;        /* effective number of electrons shed in ioization of impurity */
 22:   PetscReal Ez_initial;
 23:   PetscReal L; /* inductance */
 24:   Vec       X_0;
 25:   PetscInt  imp_idx; /* index for impurity ionizing sink */
 26:   PetscReal pulse_start;
 27:   PetscReal pulse_width;
 28:   PetscReal pulse_rate;
 29:   PetscReal current_rate;
 30:   PetscInt  plotIdx;
 31:   PetscInt  plotStep;
 32:   PetscInt  idx; /* cache */
 33:   PetscReal j;   /* cache */
 34:   PetscReal plotDt;
 35:   PetscBool plotting;
 36:   PetscBool use_spitzer_eta;
 37:   PetscInt  print_period;
 38:   PetscInt  grid_view_idx;
 39: } REctx;

 41: static const PetscReal kev_joul = 6.241506479963235e+15; /* 1/1000e */

 43: #define RE_CUT 3.
 44: /* < v, u_re * v * q > */
 45: static void f0_j_re(PetscInt dim, PetscInt Nf, PetscInt NfAux, const PetscInt uOff[], const PetscInt uOff_x[], const PetscScalar u[], const PetscScalar u_t[], const PetscScalar u_x[], const PetscInt aOff[], const PetscInt aOff_x[], const PetscScalar a[], const PetscScalar a_t[], const PetscScalar a_x[], PetscReal t, const PetscReal x[], PetscInt numConstants, const PetscScalar constants[], PetscScalar *f0)
 46: {
 47:   PetscReal n_e = PetscRealPart(u[0]);
 48:   if (dim == 2) {
 49:     if (x[1] > RE_CUT || x[1] < -RE_CUT) {                    /* simply a cutoff for REs. v_|| > 3 v(T_e) */
 50:       *f0 = n_e * 2. * PETSC_PI * x[0] * x[1] * constants[0]; /* n * r * v_|| * q */
 51:     } else {
 52:       *f0 = 0;
 53:     }
 54:   } else {
 55:     if (x[2] > RE_CUT || x[2] < -RE_CUT) { /* simply a cutoff for REs. v_|| > 3 v(T_e) */
 56:       *f0 = n_e * x[2] * constants[0];
 57:     } else {
 58:       *f0 = 0;
 59:     }
 60:   }
 61: }

 63: /* sum < v, u*v*q > */
 64: static void f0_jz_sum(PetscInt dim, PetscInt Nf, PetscInt NfAux, const PetscInt uOff[], const PetscInt uOff_x[], const PetscScalar u[], const PetscScalar u_t[], const PetscScalar u_x[], const PetscInt aOff[], const PetscInt aOff_x[], const PetscScalar a[], const PetscScalar a_t[], const PetscScalar a_x[], PetscReal t, const PetscReal x[], PetscInt numConstants, const PetscScalar q[], PetscScalar *f0)
 65: {
 66:   PetscInt ii;
 67:   f0[0] = 0;
 68:   if (dim == 2) {
 69:     for (ii = 0; ii < Nf; ii++) f0[0] += u[ii] * 2. * PETSC_PI * x[0] * x[1] * q[ii]; /* n * r * v_|| * q * v_0 */
 70:   } else {
 71:     for (ii = 0; ii < Nf; ii++) f0[0] += u[ii] * x[2] * q[ii]; /* n * v_|| * q  * v_0 */
 72:   }
 73: }

 75: /* < v, n_e > */
 76: static void f0_n(PetscInt dim, PetscInt Nf, PetscInt NfAux, const PetscInt uOff[], const PetscInt uOff_x[], const PetscScalar u[], const PetscScalar u_t[], const PetscScalar u_x[], const PetscInt aOff[], const PetscInt aOff_x[], const PetscScalar a[], const PetscScalar a_t[], const PetscScalar a_x[], PetscReal t, const PetscReal x[], PetscInt numConstants, const PetscScalar constants[], PetscScalar *f0)
 77: {
 78:   PetscInt ii = (PetscInt)PetscRealPart(constants[0]);
 79:   if (dim == 2) f0[0] = 2. * PETSC_PI * x[0] * u[ii];
 80:   else f0[0] = u[ii];
 81: }

 83: /* < v, n_e v_|| > */
 84: static void f0_vz(PetscInt dim, PetscInt Nf, PetscInt NfAux, const PetscInt uOff[], const PetscInt uOff_x[], const PetscScalar u[], const PetscScalar u_t[], const PetscScalar u_x[], const PetscInt aOff[], const PetscInt aOff_x[], const PetscScalar a[], const PetscScalar a_t[], const PetscScalar a_x[], PetscReal t, const PetscReal x[], PetscInt numConstants, const PetscScalar constants[], PetscScalar *f0)
 85: {
 86:   PetscInt ii = (PetscInt)PetscRealPart(constants[0]);
 87:   if (dim == 2) f0[0] = u[ii] * 2. * PETSC_PI * x[0] * x[1]; /* n r v_|| */
 88:   else f0[0] = u[ii] * x[2];                                 /* n v_|| */
 89: }

 91: /* < v, n_e (v-shift) > */
 92: static void f0_ve_shift(PetscInt dim, PetscInt Nf, PetscInt NfAux, const PetscInt uOff[], const PetscInt uOff_x[], const PetscScalar u[], const PetscScalar u_t[], const PetscScalar u_x[], const PetscInt aOff[], const PetscInt aOff_x[], const PetscScalar a[], const PetscScalar a_t[], const PetscScalar a_x[], PetscReal t, const PetscReal x[], PetscInt numConstants, const PetscScalar constants[], PetscScalar *f0)
 93: {
 94:   PetscReal vz = numConstants > 0 ? PetscRealPart(constants[0]) : 0;
 95:   if (dim == 2) *f0 = u[0] * 2. * PETSC_PI * x[0] * PetscSqrtReal(x[0] * x[0] + (x[1] - vz) * (x[1] - vz)); /* n r v */
 96:   else {
 97:     *f0 = u[0] * PetscSqrtReal(x[0] * x[0] + x[1] * x[1] + (x[2] - vz) * (x[2] - vz)); /* n v */
 98:   }
 99: }

101: /* CalculateE - Calculate the electric field  */
102: /*  T        -- Electron temperature  */
103: /*  n        -- Electron density  */
104: /*  lnLambda --   */
105: /*  eps0     --  */
106: /*  E        -- output E, input \hat E */
107: static PetscReal CalculateE(PetscReal Tev, PetscReal n, PetscReal lnLambda, PetscReal eps0, PetscReal *E)
108: {
109:   PetscReal c, e, m;

111:   PetscFunctionBegin;
112:   c = 299792458.0;
113:   e = 1.602176e-19;
114:   m = 9.10938e-31;
115:   if (1) {
116:     double Ec, Ehat = *E, betath = PetscSqrtReal(2 * Tev * e / (m * c * c)), j0 = Ehat * 7 / (PetscSqrtReal(2) * 2) * PetscPowReal(betath, 3) * n * e * c;
117:     Ec = n * lnLambda * PetscPowReal(e, 3) / (4 * PETSC_PI * PetscPowReal(eps0, 2) * m * c * c);
118:     *E = Ec;
119:     PetscCall(PetscPrintf(PETSC_COMM_WORLD, "CalculateE j0=%g Ec = %g\n", j0, Ec));
120:   } else {
121:     PetscReal Ed, vth;
122:     vth = PetscSqrtReal(8 * Tev * e / (m * PETSC_PI));
123:     Ed  = n * lnLambda * PetscPowReal(e, 3) / (4 * PETSC_PI * PetscPowReal(eps0, 2) * m * vth * vth);
124:     *E  = Ed;
125:   }
126:   PetscFunctionReturn(PETSC_SUCCESS);
127: }

129: static PetscReal Spitzer(PetscReal m_e, PetscReal e, PetscReal Z, PetscReal epsilon0, PetscReal lnLam, PetscReal kTe_joules)
130: {
131:   PetscReal Fz = (1 + 1.198 * Z + 0.222 * Z * Z) / (1 + 2.966 * Z + 0.753 * Z * Z), eta;
132:   eta          = Fz * 4. / 3. * PetscSqrtReal(2. * PETSC_PI) * Z * PetscSqrtReal(m_e) * PetscSqr(e) * lnLam * PetscPowReal(4 * PETSC_PI * epsilon0, -2.) * PetscPowReal(kTe_joules, -1.5);
133:   return eta;
134: }

136: /*  */
137: static PetscErrorCode testNone(TS ts, Vec X, PetscInt stepi, PetscReal time, PetscBool islast, LandauCtx *ctx, REctx *rectx)
138: {
139:   PetscFunctionBeginUser;
140:   PetscFunctionReturn(PETSC_SUCCESS);
141: }

143: /*  */
144: static PetscErrorCode testSpitzer(TS ts, Vec X, PetscInt stepi, PetscReal time, PetscBool islast, LandauCtx *ctx, REctx *rectx)
145: {
146:   PetscInt          ii, nDMs;
147:   PetscDS           prob;
148:   static PetscReal  old_ratio = 1e10;
149:   TSConvergedReason reason;
150:   PetscReal         J, J_re, spit_eta, Te_kev = 0, E, ratio, Z, n_e, v, v2;
151:   PetscScalar       user[2] = {0., ctx->charges[0]}, q[LANDAU_MAX_SPECIES], tt[LANDAU_MAX_SPECIES], vz;
152:   PetscReal         dt;
153:   DM                pack, plexe = ctx->plex[0], plexi = (ctx->num_grids == 1) ? NULL : ctx->plex[1];
154:   Vec              *XsubArray;

156:   PetscFunctionBeginUser;
157:   PetscCheck(ctx->num_species == 2, PETSC_COMM_SELF, PETSC_ERR_PLIB, "ctx->num_species %" PetscInt_FMT " != 2", ctx->num_species);
158:   PetscCall(VecGetDM(X, &pack));
159:   PetscCheck(pack, PETSC_COMM_SELF, PETSC_ERR_PLIB, "no DM");
160:   PetscCall(DMCompositeGetNumberDM(pack, &nDMs));
161:   PetscCheck(nDMs == ctx->num_grids * ctx->batch_sz, PETSC_COMM_SELF, PETSC_ERR_PLIB, "nDMs != ctx->num_grids*ctx->batch_sz %" PetscInt_FMT " != %" PetscInt_FMT, nDMs, ctx->num_grids * ctx->batch_sz);
162:   PetscCall(PetscMalloc(sizeof(*XsubArray) * nDMs, &XsubArray));
163:   PetscCall(DMCompositeGetAccessArray(pack, X, nDMs, NULL, XsubArray)); // read only
164:   PetscCall(TSGetTimeStep(ts, &dt));
165:   /* get current for each grid */
166:   for (ii = 0; ii < ctx->num_species; ii++) q[ii] = ctx->charges[ii];
167:   PetscCall(DMGetDS(plexe, &prob));
168:   PetscCall(PetscDSSetConstants(prob, 2, &q[0]));
169:   PetscCall(PetscDSSetObjective(prob, 0, &f0_jz_sum));
170:   PetscCall(DMPlexComputeIntegralFEM(plexe, XsubArray[LAND_PACK_IDX(ctx->batch_view_idx, 0)], tt, NULL));
171:   J = -ctx->n_0 * ctx->v_0 * PetscRealPart(tt[0]);
172:   if (plexi) { // add first (only) ion
173:     PetscCall(DMGetDS(plexi, &prob));
174:     PetscCall(PetscDSSetConstants(prob, 1, &q[1]));
175:     PetscCall(PetscDSSetObjective(prob, 0, &f0_jz_sum));
176:     PetscCall(DMPlexComputeIntegralFEM(plexi, XsubArray[LAND_PACK_IDX(ctx->batch_view_idx, 1)], tt, NULL));
177:     J += -ctx->n_0 * ctx->v_0 * PetscRealPart(tt[0]);
178:   }
179:   /* get N_e */
180:   PetscCall(DMGetDS(plexe, &prob));
181:   PetscCall(PetscDSSetConstants(prob, 1, user));
182:   PetscCall(PetscDSSetObjective(prob, 0, &f0_n));
183:   PetscCall(DMPlexComputeIntegralFEM(plexe, XsubArray[LAND_PACK_IDX(ctx->batch_view_idx, 0)], tt, NULL));
184:   n_e = PetscRealPart(tt[0]) * ctx->n_0;
185:   /* Z */
186:   Z = -ctx->charges[1] / ctx->charges[0];
187:   /* remove drift */
188:   if (0) {
189:     user[0] = 0; // electrons
190:     PetscCall(DMGetDS(plexe, &prob));
191:     PetscCall(PetscDSSetConstants(prob, 1, user));
192:     PetscCall(PetscDSSetObjective(prob, 0, &f0_vz));
193:     PetscCall(DMPlexComputeIntegralFEM(plexe, XsubArray[LAND_PACK_IDX(ctx->batch_view_idx, 0)], tt, NULL));
194:     vz = ctx->n_0 * PetscRealPart(tt[0]) / n_e; /* non-dimensional */
195:   } else vz = 0;
196:   /* thermal velocity */
197:   PetscCall(DMGetDS(plexe, &prob));
198:   PetscCall(PetscDSSetConstants(prob, 1, &vz));
199:   PetscCall(PetscDSSetObjective(prob, 0, &f0_ve_shift));
200:   PetscCall(DMPlexComputeIntegralFEM(plexe, XsubArray[LAND_PACK_IDX(ctx->batch_view_idx, 0)], tt, NULL));
201:   v        = ctx->n_0 * ctx->v_0 * PetscRealPart(tt[0]) / n_e;                                                   /* remove number density to get velocity */
202:   v2       = PetscSqr(v);                                                                                        /* use real space: m^2 / s^2 */
203:   Te_kev   = (v2 * ctx->masses[0] * PETSC_PI / 8) * kev_joul;                                                    /* temperature in kev */
204:   spit_eta = Spitzer(ctx->masses[0], -ctx->charges[0], Z, ctx->epsilon0, ctx->lambdas[0][1], Te_kev / kev_joul); /* kev --> J (kT) */
205:   if (0) {
206:     PetscCall(DMGetDS(plexe, &prob));
207:     PetscCall(PetscDSSetConstants(prob, 1, q));
208:     PetscCall(PetscDSSetObjective(prob, 0, &f0_j_re));
209:     PetscCall(DMPlexComputeIntegralFEM(plexe, XsubArray[LAND_PACK_IDX(ctx->batch_view_idx, 0)], tt, NULL));
210:   } else tt[0] = 0;
211:   J_re = -ctx->n_0 * ctx->v_0 * PetscRealPart(tt[0]);
212:   PetscCall(DMCompositeRestoreAccessArray(pack, X, nDMs, NULL, XsubArray)); // read only
213:   PetscCall(PetscFree(XsubArray));

215:   if (rectx->use_spitzer_eta) {
216:     E = ctx->Ez = spit_eta * (rectx->j - J_re);
217:   } else {
218:     E        = ctx->Ez; /* keep real E */
219:     rectx->j = J;       /* cache */
220:   }

222:   ratio = E / J / spit_eta;
223:   if (stepi > 10 && !rectx->use_spitzer_eta && ((old_ratio - ratio < 1.e-6))) {
224:     rectx->pulse_start     = time + 0.98 * dt;
225:     rectx->use_spitzer_eta = PETSC_TRUE;
226:   }
227:   PetscCall(TSGetConvergedReason(ts, &reason));
228:   PetscCall(TSGetConvergedReason(ts, &reason));
229:   if ((rectx->plotting) || stepi == 0 || reason || rectx->pulse_start == time + 0.98 * dt) {
230:     PetscCall(PetscPrintf(ctx->comm, "testSpitzer: %4" PetscInt_FMT ") time=%11.4e n_e= %10.3e E= %10.3e J= %10.3e J_re= %10.3e %.3g%% Te_kev= %10.3e Z_eff=%g E/J to eta ratio= %g (diff=%g) %s %s spit_eta=%g\n", stepi, (double)time,
231:                           (double)(n_e / ctx->n_0), (double)ctx->Ez, (double)J, (double)J_re, (double)(100 * J_re / J), (double)Te_kev, (double)Z, (double)ratio, (double)(old_ratio - ratio), rectx->use_spitzer_eta ? "using Spitzer eta*J E" : "constant E", rectx->pulse_start != time + 0.98 * dt ? "normal" : "transition", (double)spit_eta));
232:     PetscCheck(rectx->pulse_start != (time + 0.98 * dt), PETSC_COMM_WORLD, PETSC_ERR_ARG_WRONG, "Spitzer complete ratio=%g", (double)ratio);
233:   }
234:   old_ratio = ratio;
235:   PetscFunctionReturn(PETSC_SUCCESS);
236: }

238: static const double ppp = 2;
239: static void f0_0_diff_lp(PetscInt dim, PetscInt Nf, PetscInt NfAux, const PetscInt uOff[], const PetscInt uOff_x[], const PetscScalar u[], const PetscScalar u_t[], const PetscScalar u_x[], const PetscInt aOff[], const PetscInt aOff_x[], const PetscScalar a[], const PetscScalar a_t[], const PetscScalar a_x[], PetscReal t, const PetscReal x[], PetscInt numConstants, const PetscScalar constants[], PetscScalar *f0)
240: {
241:   LandauCtx      *ctx   = (LandauCtx *)constants;
242:   REctx          *rectx = (REctx *)ctx->data;
243:   PetscInt        ii    = rectx->idx, i;
244:   const PetscReal kT_m  = ctx->k * ctx->thermal_temps[ii] / ctx->masses[ii]; /* kT/m */
245:   const PetscReal n     = ctx->n[ii];
246:   PetscReal       diff, f_maxwell, v2 = 0, theta = 2 * kT_m / (ctx->v_0 * ctx->v_0); /* theta = 2kT/mc^2 */
247:   for (i = 0; i < dim; ++i) v2 += x[i] * x[i];
248:   f_maxwell = n * PetscPowReal(PETSC_PI * theta, -1.5) * (PetscExpReal(-v2 / theta));
249:   diff      = 2. * PETSC_PI * x[0] * (PetscRealPart(u[ii]) - f_maxwell);
250:   f0[0]     = PetscPowReal(diff, ppp);
251: }
252: static void f0_0_maxwellian_lp(PetscInt dim, PetscInt Nf, PetscInt NfAux, const PetscInt uOff[], const PetscInt uOff_x[], const PetscScalar u[], const PetscScalar u_t[], const PetscScalar u_x[], const PetscInt aOff[], const PetscInt aOff_x[], const PetscScalar a[], const PetscScalar a_t[], const PetscScalar a_x[], PetscReal t, const PetscReal x[], PetscInt numConstants, const PetscScalar constants[], PetscScalar *f0)
253: {
254:   LandauCtx      *ctx   = (LandauCtx *)constants;
255:   REctx          *rectx = (REctx *)ctx->data;
256:   PetscInt        ii    = rectx->idx, i;
257:   const PetscReal kT_m  = ctx->k * ctx->thermal_temps[ii] / ctx->masses[ii]; /* kT/m */
258:   const PetscReal n     = ctx->n[ii];
259:   PetscReal       f_maxwell, v2 = 0, theta = 2 * kT_m / (ctx->v_0 * ctx->v_0); /* theta = 2kT/mc^2 */
260:   for (i = 0; i < dim; ++i) v2 += x[i] * x[i];
261:   f_maxwell = 2. * PETSC_PI * x[0] * n * PetscPowReal(PETSC_PI * theta, -1.5) * (PetscExpReal(-v2 / theta));
262:   f0[0]     = PetscPowReal(f_maxwell, ppp);
263: }

265: /*  */
266: static PetscErrorCode testStable(TS ts, Vec X, PetscInt stepi, PetscReal time, PetscBool islast, LandauCtx *ctx, REctx *rectx)
267: {
268:   PetscDS     prob;
269:   Vec         X2;
270:   PetscReal   ediff, idiff = 0, lpm0, lpm1 = 1;
271:   PetscScalar tt[LANDAU_MAX_SPECIES];
272:   DM          dm, plex = ctx->plex[0];

274:   PetscFunctionBeginUser;
275:   PetscCall(VecGetDM(X, &dm));
276:   PetscCall(DMGetDS(plex, &prob));
277:   PetscCall(VecDuplicate(X, &X2));
278:   PetscCall(VecCopy(X, X2));
279:   if (!rectx->X_0) {
280:     PetscCall(VecDuplicate(X, &rectx->X_0));
281:     PetscCall(VecCopy(X, rectx->X_0));
282:   }
283:   PetscCall(VecAXPY(X, -1.0, rectx->X_0));
284:   PetscCall(PetscDSSetConstants(prob, sizeof(LandauCtx) / sizeof(PetscScalar), (PetscScalar *)ctx));
285:   rectx->idx = 0;
286:   PetscCall(PetscDSSetObjective(prob, 0, &f0_0_diff_lp));
287:   PetscCall(DMPlexComputeIntegralFEM(plex, X2, tt, NULL));
288:   ediff = PetscPowReal(PetscRealPart(tt[0]), 1. / ppp);
289:   PetscCall(PetscDSSetObjective(prob, 0, &f0_0_maxwellian_lp));
290:   PetscCall(DMPlexComputeIntegralFEM(plex, X2, tt, NULL));
291:   lpm0 = PetscPowReal(PetscRealPart(tt[0]), 1. / ppp);
292:   if (ctx->num_species > 1) {
293:     rectx->idx = 1;
294:     PetscCall(PetscDSSetObjective(prob, 0, &f0_0_diff_lp));
295:     PetscCall(DMPlexComputeIntegralFEM(plex, X2, tt, NULL));
296:     idiff = PetscPowReal(PetscRealPart(tt[0]), 1. / ppp);
297:     PetscCall(PetscDSSetObjective(prob, 0, &f0_0_maxwellian_lp));
298:     PetscCall(DMPlexComputeIntegralFEM(plex, X2, tt, NULL));
299:     lpm1 = PetscPowReal(PetscRealPart(tt[0]), 1. / ppp);
300:   }
301:   PetscCall(PetscPrintf(PETSC_COMM_WORLD, "%s %" PetscInt_FMT ") time=%10.3e n-%d norm electrons/max=%20.13e ions/max=%20.13e\n", "----", stepi, (double)time, (int)ppp, (double)(ediff / lpm0), (double)(idiff / lpm1)));
302:   /* view */
303:   PetscCall(VecCopy(X2, X));
304:   PetscCall(VecDestroy(&X2));
305:   if (islast) {
306:     PetscCall(VecDestroy(&rectx->X_0));
307:     rectx->X_0 = NULL;
308:   }
309:   PetscFunctionReturn(PETSC_SUCCESS);
310: }

312: static PetscErrorCode EInduction(Vec X, Vec X_t, PetscInt step, PetscReal time, LandauCtx *ctx, PetscReal *a_E)
313: {
314:   REctx      *rectx = (REctx *)ctx->data;
315:   PetscInt    ii;
316:   DM          dm, plex;
317:   PetscScalar tt[LANDAU_MAX_SPECIES], qv0[LANDAU_MAX_SPECIES];
318:   PetscReal   dJ_dt;
319:   PetscDS     prob;

321:   PetscFunctionBeginUser;
322:   for (ii = 0; ii < ctx->num_species; ii++) qv0[ii] = ctx->charges[ii] * ctx->v_0;
323:   PetscCall(VecGetDM(X, &dm));
324:   PetscCall(DMGetDS(dm, &prob));
325:   PetscCall(DMConvert(dm, DMPLEX, &plex));
326:   /* get d current / dt */
327:   PetscCall(PetscDSSetConstants(prob, ctx->num_species, qv0));
328:   PetscCall(PetscDSSetObjective(prob, 0, &f0_jz_sum));
329:   PetscCheck(X_t, PETSC_COMM_SELF, PETSC_ERR_PLIB, "X_t");
330:   PetscCall(DMPlexComputeIntegralFEM(plex, X_t, tt, NULL));
331:   dJ_dt = -ctx->n_0 * PetscRealPart(tt[0]) / ctx->t_0;
332:   /* E induction */
333:   *a_E = -rectx->L * dJ_dt + rectx->Ez_initial;
334:   PetscCall(DMDestroy(&plex));
335:   PetscFunctionReturn(PETSC_SUCCESS);
336: }

338: static PetscErrorCode EConstant(Vec X, Vec X_t, PetscInt step, PetscReal time, LandauCtx *ctx, PetscReal *a_E)
339: {
340:   PetscFunctionBeginUser;
341:   *a_E = ctx->Ez;
342:   PetscFunctionReturn(PETSC_SUCCESS);
343: }

345: static PetscErrorCode ENone(Vec X, Vec X_t, PetscInt step, PetscReal time, LandauCtx *ctx, PetscReal *a_E)
346: {
347:   PetscFunctionBeginUser;
348:   *a_E = 0;
349:   PetscFunctionReturn(PETSC_SUCCESS);
350: }

352: /* ------------------------------------------------------------------- */
353: /*
354:    FormSource - Evaluates source terms F(t).

356:    Input Parameters:
357: .  ts - the TS context
358: .  time -
359: .  X_dummmy - input vector
360: .  dummy - optional user-defined context, as set by SNESSetFunction()

362:    Output Parameter:
363: .  F - function vector
364:  */
365: static PetscErrorCode FormSource(TS ts, PetscReal ftime, Vec X_dummmy, Vec F, void *dummy)
366: {
367:   PetscReal  new_imp_rate;
368:   LandauCtx *ctx;
369:   DM         pack;
370:   REctx     *rectx;

372:   PetscFunctionBeginUser;
373:   PetscCall(TSGetDM(ts, &pack));
374:   PetscCall(DMGetApplicationContext(pack, &ctx));
375:   rectx = (REctx *)ctx->data;
376:   /* check for impurities */
377:   PetscCall(rectx->impuritySrcRate(ftime, &new_imp_rate, ctx));
378:   if (new_imp_rate != 0) {
379:     if (new_imp_rate != rectx->current_rate) {
380:       PetscInt  ii;
381:       PetscReal dne_dt, dni_dt, tilda_ns[LANDAU_MAX_SPECIES], temps[LANDAU_MAX_SPECIES];
382:       Vec       globFarray[LANDAU_MAX_GRIDS * LANDAU_MAX_BATCH_SZ];
383:       rectx->current_rate = new_imp_rate;
384:       for (ii = 1; ii < LANDAU_MAX_SPECIES; ii++) tilda_ns[ii] = 0;
385:       for (ii = 1; ii < LANDAU_MAX_SPECIES; ii++) temps[ii] = 1;
386:       dni_dt                   = new_imp_rate /* *ctx->t_0 */; /* fully ionized immediately, no normalize, stay in non-dim */
387:       dne_dt                   = new_imp_rate * rectx->Ne_ion /* *ctx->t_0 */;
388:       tilda_ns[0]              = dne_dt;
389:       tilda_ns[rectx->imp_idx] = dni_dt;
390:       temps[0]                 = rectx->T_cold;
391:       temps[rectx->imp_idx]    = rectx->T_cold;
392:       PetscCall(PetscInfo(ctx->plex[0], "\tHave new_imp_rate= %10.3e time= %10.3e de/dt= %10.3e di/dt= %10.3e ***\n", (double)new_imp_rate, (double)ftime, (double)dne_dt, (double)dni_dt));
393:       PetscCall(DMCompositeGetAccessArray(pack, F, ctx->num_grids * ctx->batch_sz, NULL, globFarray));
394:       for (PetscInt grid = 0; grid < ctx->num_grids; grid++) {
395:         /* add it */
396:         PetscCall(DMPlexLandauAddMaxwellians(ctx->plex[grid], globFarray[LAND_PACK_IDX(0, grid)], ftime, temps, tilda_ns, grid, 0, 1, ctx));
397:       }
398:       // Does DMCompositeRestoreAccessArray copy the data back? (no)
399:       PetscCall(DMCompositeRestoreAccessArray(pack, F, ctx->num_grids * ctx->batch_sz, NULL, globFarray));
400:     }
401:   } else {
402:     PetscCall(VecZeroEntries(F));
403:     rectx->current_rate = 0;
404:   }
405:   PetscFunctionReturn(PETSC_SUCCESS);
406: }

408: PetscErrorCode Monitor(TS ts, PetscInt stepi, PetscReal time, Vec X, void *actx)
409: {
410:   LandauCtx        *ctx   = (LandauCtx *)actx; /* user-defined application context */
411:   REctx            *rectx = (REctx *)ctx->data;
412:   DM                pack  = NULL;
413:   Vec               globXArray[LANDAU_MAX_GRIDS * LANDAU_MAX_BATCH_SZ];
414:   TSConvergedReason reason;

416:   PetscFunctionBeginUser;
417:   PetscCall(TSGetConvergedReason(ts, &reason));
418:   if (rectx->grid_view_idx != -1 || (reason && ctx->verbose > 3)) {
419:     PetscCall(VecGetDM(X, &pack));
420:     PetscCall(DMCompositeGetAccessArray(pack, X, ctx->num_grids * ctx->batch_sz, NULL, globXArray));
421:   }
422:   if (stepi > rectx->plotStep && rectx->plotting) {
423:     rectx->plotting = PETSC_FALSE; /* was doing diagnostics, now done */
424:     rectx->plotIdx++;
425:   }
426:   /* view */
427:   if (time / rectx->plotDt >= (PetscReal)rectx->plotIdx || reason) {
428:     if ((reason || stepi == 0 || rectx->plotIdx % rectx->print_period == 0) && ctx->verbose > 1) {
429:       /* print norms */
430:       PetscCall(DMPlexLandauPrintNorms(X, stepi));
431:     }
432:     if (!rectx->plotting) { /* first step of possible backtracks */
433:       rectx->plotting = PETSC_TRUE;
434:       /* diagnostics + change E field with Sptizer (not just a monitor) */
435:       PetscCall(rectx->test(ts, X, stepi, time, reason ? PETSC_TRUE : PETSC_FALSE, ctx, rectx));
436:     } else {
437:       PetscCall(PetscPrintf(PETSC_COMM_WORLD, "\t\t ERROR SKIP test spit ------\n"));
438:       rectx->plotting = PETSC_TRUE;
439:     }
440:     if (rectx->grid_view_idx != -1) {
441:       PetscCall(PetscObjectSetName((PetscObject)globXArray[LAND_PACK_IDX(ctx->batch_view_idx, rectx->grid_view_idx)], rectx->grid_view_idx == 0 ? "ue" : "ui"));
442:       /* view, overwrite step when back tracked */
443:       PetscCall(DMSetOutputSequenceNumber(ctx->plex[rectx->grid_view_idx], rectx->plotIdx, time * ctx->t_0));
444:       PetscCall(VecViewFromOptions(globXArray[LAND_PACK_IDX(ctx->batch_view_idx, rectx->grid_view_idx)], NULL, "-ex2_vec_view"));
445:     }
446:     rectx->plotStep = stepi;
447:   } else {
448:     if (rectx->plotting) PetscCall(PetscPrintf(PETSC_COMM_WORLD, " ERROR rectx->plotting=%s step %" PetscInt_FMT "\n", PetscBools[rectx->plotting], stepi));
449:     /* diagnostics + change E field with Sptizer (not just a monitor) - can we lag this? */
450:     PetscCall(rectx->test(ts, X, stepi, time, reason ? PETSC_TRUE : PETSC_FALSE, ctx, rectx));
451:   }
452:   /* parallel check that only works of all batches are identical */
453:   if (reason && ctx->verbose > 3 && ctx->batch_sz > 1) {
454:     PetscReal   val, rval;
455:     PetscMPIInt rank;
456:     PetscCallMPI(MPI_Comm_rank(PETSC_COMM_WORLD, &rank));
457:     for (PetscInt grid = 0; grid < ctx->num_grids; grid++) {
458:       PetscInt nerrors = 0;
459:       for (PetscInt i = 0; i < ctx->batch_sz; i++) {
460:         PetscCall(VecNorm(globXArray[LAND_PACK_IDX(i, grid)], NORM_2, &val));
461:         if (i == 0) rval = val;
462:         else if ((val = PetscAbs(val - rval) / rval) > 1000 * PETSC_MACHINE_EPSILON) {
463:           PetscCall(PetscPrintf(PETSC_COMM_SELF, " [%d] Warning %" PetscInt_FMT ".%" PetscInt_FMT ") diff = %2.15e\n", rank, grid, i, (double)val));
464:           nerrors++;
465:         }
466:       }
467:       if (nerrors) {
468:         PetscCall(PetscPrintf(PETSC_COMM_SELF, " ***** [%d] ERROR max %" PetscInt_FMT " errors\n", rank, nerrors));
469:       } else {
470:         PetscCall(PetscPrintf(PETSC_COMM_WORLD, "[%d] %" PetscInt_FMT ") batch consistency check OK\n", rank, grid));
471:       }
472:     }
473:   }
474:   rectx->idx = 0;
475:   if (rectx->grid_view_idx != -1 || (reason && ctx->verbose > 3)) PetscCall(DMCompositeRestoreAccessArray(pack, X, ctx->num_grids * ctx->batch_sz, NULL, globXArray));
476:   PetscFunctionReturn(PETSC_SUCCESS);
477: }

479: PetscErrorCode PreStep(TS ts)
480: {
481:   LandauCtx *ctx;
482:   REctx     *rectx;
483:   DM         dm;
484:   PetscInt   stepi;
485:   PetscReal  time;
486:   Vec        X;

488:   PetscFunctionBeginUser;
489:   /* not used */
490:   PetscCall(TSGetDM(ts, &dm));
491:   PetscCall(TSGetTime(ts, &time));
492:   PetscCall(TSGetSolution(ts, &X));
493:   PetscCall(DMGetApplicationContext(dm, &ctx));
494:   rectx = (REctx *)ctx->data;
495:   PetscCall(TSGetStepNumber(ts, &stepi));
496:   /* update E */
497:   PetscCall(rectx->E(X, NULL, stepi, time, ctx, &ctx->Ez));
498:   PetscFunctionReturn(PETSC_SUCCESS);
499: }

501: /* model for source of non-ionized impurities, profile provided by model, in du/dt form in normalized units (tricky because n_0 is normalized with electrons) */
502: static PetscErrorCode stepSrc(PetscReal time, PetscReal *rho, LandauCtx *ctx)
503: {
504:   REctx *rectx = (REctx *)ctx->data;

506:   PetscFunctionBeginUser;
507:   if (time >= rectx->pulse_start) *rho = rectx->pulse_rate;
508:   else *rho = 0.;
509:   PetscFunctionReturn(PETSC_SUCCESS);
510: }
511: static PetscErrorCode zeroSrc(PetscReal time, PetscReal *rho, LandauCtx *ctx)
512: {
513:   PetscFunctionBeginUser;
514:   *rho = 0.;
515:   PetscFunctionReturn(PETSC_SUCCESS);
516: }
517: static PetscErrorCode pulseSrc(PetscReal time, PetscReal *rho, LandauCtx *ctx)
518: {
519:   REctx *rectx = (REctx *)ctx->data;

521:   PetscFunctionBeginUser;
522:   PetscCheck(rectx->pulse_start != PETSC_MAX_REAL, PETSC_COMM_WORLD, PETSC_ERR_ARG_WRONG, "'-ex2_pulse_start_time X' must be used with '-ex2_impurity_source_type pulse'");
523:   if (time < rectx->pulse_start || time > rectx->pulse_start + 3 * rectx->pulse_width) *rho = 0;
524:   else {
525:     double x = PetscSinReal((time - rectx->pulse_start) / (3 * rectx->pulse_width) * 2 * PETSC_PI - PETSC_PI / 2) + 1; /* 0:2, integrates to 1.0 */
526:     *rho     = rectx->pulse_rate * x / (3 * rectx->pulse_width);
527:     if (!rectx->use_spitzer_eta) rectx->use_spitzer_eta = PETSC_TRUE; /* use it next time */
528:   }
529:   PetscFunctionReturn(PETSC_SUCCESS);
530: }

534: static PetscErrorCode ProcessREOptions(REctx *rectx, const LandauCtx *ctx, DM dm, const char prefix[])
535: {
536:   PetscFunctionList plist = NULL, testlist = NULL, elist = NULL;
537:   char              pname[256], testname[256], ename[256];
538:   DM                dm_dummy;
539:   PetscBool         Connor_E = PETSC_FALSE;

541:   PetscFunctionBeginUser;
542:   PetscCall(DMCreate(PETSC_COMM_WORLD, &dm_dummy));
543:   rectx->Ne_ion          = 1;    /* number of electrons given up by impurity ion */
544:   rectx->T_cold          = .005; /* kev */
545:   rectx->ion_potential   = 15;   /* ev */
546:   rectx->L               = 2;
547:   rectx->X_0             = NULL;
548:   rectx->imp_idx         = ctx->num_species - 1; /* default ionized impurity as last one */
549:   rectx->pulse_start     = PETSC_MAX_REAL;
550:   rectx->pulse_width     = 1;
551:   rectx->plotStep        = PETSC_MAX_INT;
552:   rectx->pulse_rate      = 1.e-1;
553:   rectx->current_rate    = 0;
554:   rectx->plotIdx         = 0;
555:   rectx->j               = 0;
556:   rectx->plotDt          = 1.0;
557:   rectx->plotting        = PETSC_FALSE;
558:   rectx->use_spitzer_eta = PETSC_FALSE;
559:   rectx->idx             = 0;
560:   rectx->print_period    = 10;
561:   rectx->grid_view_idx   = -1; // do not get if not needed
562:   /* Register the available impurity sources */
563:   PetscCall(PetscFunctionListAdd(&plist, "step", &stepSrc));
564:   PetscCall(PetscFunctionListAdd(&plist, "none", &zeroSrc));
565:   PetscCall(PetscFunctionListAdd(&plist, "pulse", &pulseSrc));
566:   PetscCall(PetscStrncpy(pname, "none", sizeof(pname)));
567:   PetscCall(PetscFunctionListAdd(&testlist, "none", &testNone));
568:   PetscCall(PetscFunctionListAdd(&testlist, "spitzer", &testSpitzer));
569:   PetscCall(PetscFunctionListAdd(&testlist, "stable", &testStable));
570:   PetscCall(PetscStrncpy(testname, "none", sizeof(testname)));
571:   PetscCall(PetscFunctionListAdd(&elist, "none", &ENone));
572:   PetscCall(PetscFunctionListAdd(&elist, "induction", &EInduction));
573:   PetscCall(PetscFunctionListAdd(&elist, "constant", &EConstant));
574:   PetscCall(PetscStrncpy(ename, "constant", sizeof(ename)));

576:   PetscOptionsBegin(PETSC_COMM_SELF, prefix, "Options for Runaway/seed electron model", "none");
577:   PetscCall(PetscOptionsReal("-ex2_plot_dt", "Plotting interval", "ex2.c", rectx->plotDt, &rectx->plotDt, NULL));
578:   if (rectx->plotDt < 0) rectx->plotDt = 1e30;
579:   if (rectx->plotDt == 0) rectx->plotDt = 1e-30;
580:   PetscCall(PetscOptionsInt("-ex2_print_period", "Plotting interval", "ex2.c", rectx->print_period, &rectx->print_period, NULL));
581:   PetscCall(PetscOptionsInt("-ex2_grid_view_idx", "grid_view_idx", "ex2.c", rectx->grid_view_idx, &rectx->grid_view_idx, NULL));
582:   PetscCheck(rectx->grid_view_idx < ctx->num_grids || rectx->grid_view_idx == -1, PETSC_COMM_WORLD, PETSC_ERR_ARG_WRONG, "rectx->grid_view_idx (%" PetscInt_FMT ") >= ctx->num_grids (%" PetscInt_FMT ")", rectx->imp_idx, ctx->num_grids);
583:   PetscCall(PetscOptionsFList("-ex2_impurity_source_type", "Name of impurity source to run", "", plist, pname, pname, sizeof(pname), NULL));
584:   PetscCall(PetscOptionsFList("-ex2_test_type", "Name of test to run", "", testlist, testname, testname, sizeof(testname), NULL));
585:   PetscCall(PetscOptionsInt("-ex2_impurity_index", "index of sink for impurities", "none", rectx->imp_idx, &rectx->imp_idx, NULL));
586:   PetscCheck((rectx->imp_idx < ctx->num_species && rectx->imp_idx >= 1) || ctx->num_species <= 1, PETSC_COMM_WORLD, PETSC_ERR_ARG_WRONG, "index of sink for impurities ions is out of range (%" PetscInt_FMT "), must be > 0 && < NS", rectx->imp_idx);
587:   PetscCall(PetscOptionsFList("-ex2_e_field_type", "Electric field type", "", elist, ename, ename, sizeof(ename), NULL));
588:   rectx->Ne_ion = -ctx->charges[rectx->imp_idx] / ctx->charges[0];
589:   PetscCall(PetscOptionsReal("-ex2_t_cold", "Temperature of cold electron and ions after ionization in keV", "none", rectx->T_cold, &rectx->T_cold, NULL));
590:   PetscCall(PetscOptionsReal("-ex2_pulse_start_time", "Time at which pulse happens for 'pulse' source", "none", rectx->pulse_start, &rectx->pulse_start, NULL));
591:   PetscCall(PetscOptionsReal("-ex2_pulse_width_time", "Width of pulse 'pulse' source", "none", rectx->pulse_width, &rectx->pulse_width, NULL));
592:   PetscCall(PetscOptionsReal("-ex2_pulse_rate", "Number density of pulse for 'pulse' source", "none", rectx->pulse_rate, &rectx->pulse_rate, NULL));
593:   rectx->T_cold *= 1.16e7; /* convert to Kelvin */
594:   PetscCall(PetscOptionsReal("-ex2_ion_potential", "Potential to ionize impurity (should be array) in ev", "none", rectx->ion_potential, &rectx->ion_potential, NULL));
595:   PetscCall(PetscOptionsReal("-ex2_inductance", "Inductance E field", "none", rectx->L, &rectx->L, NULL));
596:   PetscCall(PetscOptionsBool("-ex2_connor_e_field_units", "Scale Ex but Connor-Hastie E_c", "none", Connor_E, &Connor_E, NULL));
597:   PetscCall(PetscInfo(dm_dummy, "Num electrons from ions=%g, T_cold=%10.3e, ion potential=%10.3e, E_z=%10.3e v_0=%10.3e\n", (double)rectx->Ne_ion, (double)rectx->T_cold, (double)rectx->ion_potential, (double)ctx->Ez, (double)ctx->v_0));
598:   PetscOptionsEnd();
599:   /* get impurity source rate function */
600:   PetscCall(PetscFunctionListFind(plist, pname, &rectx->impuritySrcRate));
601:   PetscCheck(rectx->impuritySrcRate, PETSC_COMM_WORLD, PETSC_ERR_ARG_WRONG, "No impurity source function found '%s'", pname);
602:   PetscCall(PetscFunctionListFind(testlist, testname, &rectx->test));
603:   PetscCheck(rectx->test, PETSC_COMM_WORLD, PETSC_ERR_ARG_WRONG, "No test found '%s'", testname);
604:   PetscCall(PetscFunctionListFind(elist, ename, &rectx->E));
605:   PetscCheck(rectx->E, PETSC_COMM_WORLD, PETSC_ERR_ARG_WRONG, "No E field function found '%s'", ename);
606:   PetscCall(PetscFunctionListDestroy(&plist));
607:   PetscCall(PetscFunctionListDestroy(&testlist));
608:   PetscCall(PetscFunctionListDestroy(&elist));

610:   /* convert E from Connor-Hastie E_c units to real if doing Spitzer E */
611:   if (Connor_E) {
612:     PetscReal E = ctx->Ez, Tev = ctx->thermal_temps[0] * 8.621738e-5, n = ctx->n_0 * ctx->n[0];
613:     CalculateE(Tev, n, ctx->lambdas[0][1], ctx->epsilon0, &E);
614:     ((LandauCtx *)ctx)->Ez *= E;
615:   }
616:   PetscCall(DMDestroy(&dm_dummy));
617:   PetscFunctionReturn(PETSC_SUCCESS);
618: }

620: int main(int argc, char **argv)
621: {
622:   DM            pack;
623:   Vec           X;
624:   PetscInt      dim = 2, nDMs;
625:   TS            ts;
626:   Mat           J;
627:   PetscDS       prob;
628:   LandauCtx    *ctx;
629:   REctx        *rectx;
630:   PetscMPIInt   rank;
631:   PetscLogStage stage;

633:   PetscFunctionBeginUser;
634:   PetscCall(PetscInitialize(&argc, &argv, NULL, help));
635:   PetscCallMPI(MPI_Comm_rank(PETSC_COMM_WORLD, &rank));
636:   if (rank) { /* turn off output stuff for duplicate runs */
637:     PetscCall(PetscOptionsClearValue(NULL, "-ex2_dm_view"));
638:     PetscCall(PetscOptionsClearValue(NULL, "-ex2_vec_view"));
639:     PetscCall(PetscOptionsClearValue(NULL, "-ex2_vec_view_init"));
640:     PetscCall(PetscOptionsClearValue(NULL, "-ex2_dm_view_init"));
641:     PetscCall(PetscOptionsClearValue(NULL, "-info")); /* this does not work */
642:   }
643:   PetscCall(PetscOptionsGetInt(NULL, NULL, "-dim", &dim, NULL));
644:   /* Create a mesh */
645:   PetscCall(DMPlexLandauCreateVelocitySpace(PETSC_COMM_WORLD, dim, "", &X, &J, &pack));
646:   PetscCall(DMCompositeGetNumberDM(pack, &nDMs));
647:   PetscCall(PetscObjectSetName((PetscObject)J, "Jacobian"));
648:   PetscCall(PetscObjectSetName((PetscObject)X, "f"));
649:   PetscCall(DMGetApplicationContext(pack, &ctx));
650:   PetscCall(DMSetUp(pack));
651:   /* context */
652:   PetscCall(PetscNew(&rectx));
653:   ctx->data = rectx;
654:   PetscCall(ProcessREOptions(rectx, ctx, pack, ""));
655:   PetscCall(DMGetDS(pack, &prob));
656:   if (rectx->grid_view_idx != -1) {
657:     Vec *XsubArray = NULL;
658:     PetscCall(PetscMalloc(sizeof(*XsubArray) * nDMs, &XsubArray));
659:     PetscCall(DMCompositeGetAccessArray(pack, X, nDMs, NULL, XsubArray)); // read only
660:     PetscCall(PetscObjectSetName((PetscObject)XsubArray[LAND_PACK_IDX(ctx->batch_view_idx, rectx->grid_view_idx)], rectx->grid_view_idx == 0 ? "ue" : "ui"));
661:     PetscCall(DMSetOutputSequenceNumber(ctx->plex[rectx->grid_view_idx], 0, 0.0));
662:     PetscCall(DMViewFromOptions(ctx->plex[rectx->grid_view_idx], NULL, "-ex2_dm_view"));
663:     PetscCall(DMViewFromOptions(ctx->plex[rectx->grid_view_idx], NULL, "-ex2_dm_view_init"));
664:     PetscCall(VecViewFromOptions(XsubArray[LAND_PACK_IDX(ctx->batch_view_idx, rectx->grid_view_idx)], NULL, "-ex2_vec_view"));      // initial condition (monitor plots after step)
665:     PetscCall(VecViewFromOptions(XsubArray[LAND_PACK_IDX(ctx->batch_view_idx, rectx->grid_view_idx)], NULL, "-ex2_vec_view_init")); // initial condition (monitor plots after step)
666:     PetscCall(DMCompositeRestoreAccessArray(pack, X, nDMs, NULL, XsubArray));                                                       // read only
667:     PetscCall(PetscFree(XsubArray));
668:   }
669:   /* Create timestepping solver context */
670:   PetscCall(TSCreate(PETSC_COMM_SELF, &ts));
671:   PetscCall(TSSetDM(ts, pack));
672:   PetscCall(TSSetIFunction(ts, NULL, DMPlexLandauIFunction, NULL));
673:   PetscCall(TSSetIJacobian(ts, J, J, DMPlexLandauIJacobian, NULL));
674:   PetscCall(TSSetRHSFunction(ts, NULL, FormSource, NULL));
675:   PetscCall(TSSetFromOptions(ts));
676:   PetscCall(TSSetSolution(ts, X));
677:   PetscCall(TSSetApplicationContext(ts, ctx));
678:   PetscCall(TSMonitorSet(ts, Monitor, ctx, NULL));
679:   PetscCall(TSSetPreStep(ts, PreStep));
680:   rectx->Ez_initial = ctx->Ez; /* cache for induction calculation - applied E field */
681:   if (1) {                     /* warm up an test just DMPlexLandauIJacobian */
682:     Vec       vec;
683:     PetscInt  nsteps;
684:     PetscReal dt;
685:     PetscCall(PetscLogStageRegister("Warmup", &stage));
686:     PetscCall(PetscLogStagePush(stage));
687:     PetscCall(VecDuplicate(X, &vec));
688:     PetscCall(VecCopy(X, vec));
689:     PetscCall(TSGetMaxSteps(ts, &nsteps));
690:     PetscCall(TSGetTimeStep(ts, &dt));
691:     PetscCall(TSSetMaxSteps(ts, 1));
692:     PetscCall(TSSolve(ts, X));
693:     PetscCall(TSSetMaxSteps(ts, nsteps));
694:     PetscCall(TSSetStepNumber(ts, 0));
695:     PetscCall(TSSetTime(ts, 0));
696:     PetscCall(TSSetTimeStep(ts, dt));
697:     rectx->plotIdx  = 0;
698:     rectx->plotting = PETSC_FALSE;
699:     PetscCall(PetscLogStagePop());
700:     PetscCall(VecCopy(vec, X));
701:     PetscCall(VecDestroy(&vec));
702:     PetscCall(PetscObjectStateIncrease((PetscObject)ctx->J));
703:   }
704:   /* go */
705:   PetscCall(PetscLogStageRegister("Solve", &stage));
706:   ctx->stage = 0; // lets not use this stage
707:   PetscCall(PetscLogStagePush(stage));
708: #if defined(PETSC_HAVE_CUDA_NVTX)
709:   nvtxRangePushA("ex2-TSSolve-warm");
710: #endif
711:   PetscCall(TSSolve(ts, X));
712: #if defined(PETSC_HAVE_CUDA_NVTX)
713:   nvtxRangePop();
714: #endif
715:   PetscCall(PetscLogStagePop());
716:   /* clean up */
717:   PetscCall(DMPlexLandauDestroyVelocitySpace(&pack));
718:   PetscCall(TSDestroy(&ts));
719:   PetscCall(VecDestroy(&X));
720:   PetscCall(PetscFree(rectx));
721:   PetscCall(PetscFinalize());
722:   return 0;
723: }

725: /*TEST

727:   testset:
728:     requires: p4est !complex double defined(PETSC_USE_DMLANDAU_2D)
729:     output_file: output/ex2_0.out
730:     args: -dm_landau_num_species_grid 1,1 -dm_landau_Ez 0 -petscspace_degree 3 -petscspace_poly_tensor 1 -dm_landau_type p4est -dm_landau_ion_masses 2 -dm_landau_ion_charges 1 -dm_landau_thermal_temps 5,5 -dm_landau_n 2,2 -dm_landau_n_0 5e19 -ts_monitor -snes_rtol 1.e-9 -snes_stol 1.e-14 -snes_monitor -snes_converged_reason -snes_max_it 10 -ts_type arkimex -ts_arkimex_type 1bee -ts_max_snes_failures -1 -ts_rtol 1e-3 -ts_dt 1.e-2 -ts_max_time 1 -ts_adapt_clip .5,1.25 -ts_max_steps 2 -ts_adapt_scale_solve_failed 0.75 -ts_adapt_time_step_increase_delay 5 -dm_landau_amr_levels_max 2,2 -dm_landau_amr_re_levels 2 -dm_landau_re_radius 0 -ex2_impurity_source_type pulse -ex2_pulse_start_time 1e-1 -ex2_pulse_width_time 10 -ex2_pulse_rate 1e-2 -ex2_t_cold .05 -ex2_plot_dt 1e-1 -dm_refine 0 -dm_landau_gpu_assembly true -dm_landau_batch_size 2 -dm_landau_verbose 2 -dm_landau_domain_radius 5.,5.
731:     test:
732:       suffix: cpu
733:       args: -dm_landau_device_type cpu -ksp_type bicg -pc_type jacobi
734:     test:
735:       suffix: kokkos
736:       requires: kokkos_kernels !defined(PETSC_HAVE_CUDA_CLANG) !defined(PETSC_HAVE_SYCL)
737:       args: -dm_landau_device_type kokkos -dm_mat_type aijkokkos -dm_vec_type kokkos -ksp_type bicg -pc_type jacobi
738:     test:
739:       suffix: kokkos_batch
740:       requires: kokkos_kernels
741:       args: -dm_landau_device_type kokkos -dm_mat_type aijkokkos -dm_vec_type kokkos -ksp_type preonly -pc_type bjkokkos -pc_bjkokkos_ksp_type bicg -pc_bjkokkos_pc_type jacobi
742:     test:
743:       suffix: kokkos_batch_tfqmr
744:       requires: kokkos_kernels !defined(PETSC_HAVE_CUDA_CLANG) !defined(PETSC_HAVE_SYCL)
745:       args: -dm_landau_device_type kokkos -dm_mat_type aijkokkos -dm_vec_type kokkos -ksp_type preonly -pc_type bjkokkos -pc_bjkokkos_ksp_type tfqmr -pc_bjkokkos_pc_type jacobi

747:   test:
748:     requires: !complex double defined(PETSC_USE_DMLANDAU_2D) !kokkos_kernels !cuda
749:     suffix: single
750:     nsize: 1
751:     args: -dm_refine 2 -dm_landau_num_species_grid 1 -dm_landau_thermal_temps 1 -dm_landau_electron_shift 1.25 -petscspace_degree 3 -snes_converged_reason -ts_type beuler -ts_dt .1 -ex2_plot_dt .1 -ts_max_steps 1 -ex2_grid_view_idx 0 -ex2_dm_view -snes_rtol 1.e-13 -snes_stol 1.e-13 -dm_landau_verbose 2 -ex2_print_period 1 -ksp_type preonly -pc_type lu -dm_landau_device_type cpu -dm_landau_use_relativistic_corrections

753:   testset:
754:     requires: !complex double defined(PETSC_USE_DMLANDAU_2D)
755:     nsize: 1
756:     output_file: output/ex2_simplex.out
757:     args: -dim 2 -dm_landau_num_species_grid 1,1 -petscspace_degree 2 -dm_landau_simplex -dm_landau_ion_masses 2 -dm_landau_ion_charges 1 -dm_landau_thermal_temps 2,1 -dm_landau_n 1,1 -snes_rtol 1e-15 -snes_stol 1e-15 -snes_monitor -ts_type beuler -snes_converged_reason -ts_exact_final_time stepover -ts_dt .1 -ts_max_steps 1 -ts_max_snes_failures -1 -ksp_type preonly -pc_type lu -dm_landau_verbose 2 -ex2_grid_view_idx 0 -ex2_dm_view -dm_refine 1 -ksp_type bicg -pc_type jacobi
758:     test:
759:       suffix: simplex
760:       args: -dm_landau_device_type cpu
761:     test:
762:       suffix: simplexkokkos
763:       requires: kokkos_kernels !defined(PETSC_HAVE_CUDA_CLANG) !defined(PETSC_HAVE_SYCL)
764:       args: -dm_landau_device_type kokkos -dm_mat_type aijkokkos -dm_vec_type kokkos

766: TEST*/