Date: 2022-08-02T03:15:03+00:00

Actual source code: ex11.c

      1: static char help[] = "Second Order TVD Finite Volume Example.\n";

We use a second order TVD finite volume method to evolve a system of PDEs. Our simple upwinded residual evaluation loops
over all mesh faces and uses a Riemann solver to produce the flux given the face geometry and cell values,
\begin{equation}
f_i = \mathrm{riemann}(\mathrm{phys}, p_\mathrm{centroid}, \hat n, x^L, x^R)
\end{equation}
and then update the cell values given the cell volume.
\begin{eqnarray}
f^L_i &-=& \frac{f_i}{vol^L} \\
f^R_i &+=& \frac{f_i}{vol^R}
\end{eqnarray}
As an example, we can consider the shallow water wave equation,
\begin{eqnarray}
h_t + \nabla\cdot \left( uh \right) &=& 0 \\
(uh)_t + \nabla\cdot \left( u\otimes uh + \frac{g h^2}{2} I \right) &=& 0
\end{eqnarray}
where $h$ is wave height, $u$ is wave velocity, and $g$ is the acceleration due to gravity.
A representative Riemann solver for the shallow water equations is given in the PhysicsRiemann_SW() function,
\begin{eqnarray}
f^{L,R}_h &=& uh^{L,R} \cdot \hat n \\
f^{L,R}_{uh} &=& \frac{f^{L,R}_h}{h^{L,R}} uh^{L,R} + g (h^{L,R})^2 \hat n \\
c^{L,R} &=& \sqrt{g h^{L,R}} \\
s &=& \max\left( \left|\frac{uh^L \cdot \hat n}{h^L}\right| + c^L, \left|\frac{uh^R \cdot \hat n}{h^R}\right| + c^R \right) \\
f_i &=& \frac{A_\mathrm{face}}{2} \left( f^L_i + f^R_i + s \left( x^L_i - x^R_i \right) \right)
\end{eqnarray}
where $c$ is the local gravity wave speed and $f_i$ is a Rusanov flux.
The more sophisticated residual evaluation in RHSFunctionLocal_LS() uses a least-squares fit to a quadratic polynomial
over a neighborhood of the given element.
The mesh is read in from an ExodusII file, usually generated by Cubit.

     37: #include <petscdmplex.h>
     38: #include <petscdmforest.h>
     39: #include <petscds.h>
     40: #include <petscts.h>

     42: #define DIM 2                   /* Geometric dimension */
     43: #define ALEN(a) (sizeof(a)/sizeof((a)[0]))

     45: static PetscFunctionList PhysicsList, PhysicsRiemannList_SW;

     47: /* Represents continuum physical equations. */
     48: typedef struct _n_Physics *Physics;

     50: /* Physical model includes boundary conditions, initial conditions, and functionals of interest. It is
     51:  * discretization-independent, but its members depend on the scenario being solved. */
     52: typedef struct _n_Model *Model;

     54: /* 'User' implements a discretization of a continuous model. */
     55: typedef struct _n_User *User;
     56: typedef PetscErrorCode (*SolutionFunction)(Model,PetscReal,const PetscReal*,PetscScalar*,void*);
     57: typedef PetscErrorCode (*SetUpBCFunction)(DM,PetscDS,Physics);
     58: typedef PetscErrorCode (*FunctionalFunction)(Model,PetscReal,const PetscReal*,const PetscScalar*,PetscReal*,void*);
     59: typedef PetscErrorCode (*SetupFields)(Physics,PetscSection);
     60: static PetscErrorCode ModelSolutionSetDefault(Model,SolutionFunction,void*);
     61: static PetscErrorCode ModelFunctionalRegister(Model,const char*,PetscInt*,FunctionalFunction,void*);
     62: static PetscErrorCode OutputVTK(DM,const char*,PetscViewer*);

     64: struct FieldDescription {
     65:   const char *name;
     66:   PetscInt dof;
     67: };

     69: typedef struct _n_FunctionalLink *FunctionalLink;
     70: struct _n_FunctionalLink {
     71:   char               *name;
     72:   FunctionalFunction func;
     73:   void               *ctx;
     74:   PetscInt           offset;
     75:   FunctionalLink     next;
     76: };

     78: struct _n_Physics {
     79:   PetscRiemannFunc riemann;
     80:   PetscInt         dof;          /* number of degrees of freedom per cell */
     81:   PetscReal        maxspeed;     /* kludge to pick initial time step, need to add monitoring and step control */
     82:   void             *data;
     83:   PetscInt         nfields;
     84:   const struct FieldDescription *field_desc;
     85: };

     87: struct _n_Model {
     88:   MPI_Comm         comm;        /* Does not do collective communicaton, but some error conditions can be collective */
     89:   Physics          physics;
     90:   FunctionalLink   functionalRegistry;
     91:   PetscInt         maxComputed;
     92:   PetscInt         numMonitored;
     93:   FunctionalLink   *functionalMonitored;
     94:   PetscInt         numCall;
     95:   FunctionalLink   *functionalCall;
     96:   SolutionFunction solution;
     97:   SetUpBCFunction  setupbc;
     98:   void             *solutionctx;
     99:   PetscReal        maxspeed;    /* estimate of global maximum speed (for CFL calculation) */
    100:   PetscReal        bounds[2*DIM];
    101:   PetscErrorCode   (*errorIndicator)(PetscInt, PetscReal, PetscInt, const PetscScalar[], const PetscScalar[], PetscReal *, void *);
    102:   void             *errorCtx;
    103: };

    105: struct _n_User {
    106:   PetscInt vtkInterval;   /* For monitor */
    107:   char outputBasename[PETSC_MAX_PATH_LEN]; /* Basename for output files */
    108:   PetscInt monitorStepOffset;
    109:   Model    model;
    110:   PetscBool vtkmon;
    111: };

    113: static inline PetscReal DotDIMReal(const PetscReal *x,const PetscReal *y)
    114: {
    115:   PetscInt  i;
    116:   PetscReal prod=0.0;

    118:   for (i=0; i<DIM; i++) prod += x[i]*y[i];
    119:   return prod;
    120: }
    121: static inline PetscReal NormDIM(const PetscReal *x) { return PetscSqrtReal(PetscAbsReal(DotDIMReal(x,x))); }

    123: static inline PetscReal Dot2Real(const PetscReal *x,const PetscReal *y) { return x[0]*y[0] + x[1]*y[1];}
    124: static inline PetscReal Norm2Real(const PetscReal *x) { return PetscSqrtReal(PetscAbsReal(Dot2Real(x,x)));}
    125: static inline void Normalize2Real(PetscReal *x) { PetscReal a = 1./Norm2Real(x); x[0] *= a; x[1] *= a; }
    126: static inline void Waxpy2Real(PetscReal a,const PetscReal *x,const PetscReal *y,PetscReal *w) { w[0] = a*x[0] + y[0]; w[1] = a*x[1] + y[1]; }
    127: static inline void Scale2Real(PetscReal a,const PetscReal *x,PetscReal *y) { y[0] = a*x[0]; y[1] = a*x[1]; }

    129: /******************* Advect ********************/
    130: typedef enum {ADVECT_SOL_TILTED,ADVECT_SOL_BUMP,ADVECT_SOL_BUMP_CAVITY} AdvectSolType;
    131: static const char *const AdvectSolTypes[] = {"TILTED","BUMP","BUMP_CAVITY","AdvectSolType","ADVECT_SOL_",0};
    132: typedef enum {ADVECT_SOL_BUMP_CONE,ADVECT_SOL_BUMP_COS} AdvectSolBumpType;
    133: static const char *const AdvectSolBumpTypes[] = {"CONE","COS","AdvectSolBumpType","ADVECT_SOL_BUMP_",0};

    135: typedef struct {
    136:   PetscReal wind[DIM];
    137: } Physics_Advect_Tilted;
    138: typedef struct {
    139:   PetscReal         center[DIM];
    140:   PetscReal         radius;
    141:   AdvectSolBumpType type;
    142: } Physics_Advect_Bump;

    144: typedef struct {
    145:   PetscReal     inflowState;
    146:   AdvectSolType soltype;
    147:   union {
    148:     Physics_Advect_Tilted tilted;
    149:     Physics_Advect_Bump   bump;
    150:   } sol;
    151:   struct {
    152:     PetscInt Solution;
    153:     PetscInt Error;
    154:   } functional;
    155: } Physics_Advect;

    157: static const struct FieldDescription PhysicsFields_Advect[] = {{"U",1},{NULL,0}};

    159: static PetscErrorCode PhysicsBoundary_Advect_Inflow(PetscReal time, const PetscReal *c, const PetscReal *n, const PetscScalar *xI, PetscScalar *xG, void *ctx)
    160: {
    161:   Physics        phys    = (Physics)ctx;
    162:   Physics_Advect *advect = (Physics_Advect*)phys->data;

    165:   xG[0] = advect->inflowState;
    166:   return 0;
    167: }

    169: static PetscErrorCode PhysicsBoundary_Advect_Outflow(PetscReal time, const PetscReal *c, const PetscReal *n, const PetscScalar *xI, PetscScalar *xG, void *ctx)
    170: {
    172:   xG[0] = xI[0];
    173:   return 0;
    174: }

    176: static void PhysicsRiemann_Advect(PetscInt dim, PetscInt Nf, const PetscReal *qp, const PetscReal *n, const PetscScalar *xL, const PetscScalar *xR, PetscInt numConstants, const PetscScalar constants[], PetscScalar *flux, Physics phys)
    177: {
    178:   Physics_Advect *advect = (Physics_Advect*)phys->data;
    179:   PetscReal      wind[DIM],wn;

    181:   switch (advect->soltype) {
    182:   case ADVECT_SOL_TILTED: {
    183:     Physics_Advect_Tilted *tilted = &advect->sol.tilted;
    184:     wind[0] = tilted->wind[0];
    185:     wind[1] = tilted->wind[1];
    186:   } break;
    187:   case ADVECT_SOL_BUMP:
    188:     wind[0] = -qp[1];
    189:     wind[1] = qp[0];
    190:     break;
    191:   case ADVECT_SOL_BUMP_CAVITY:
    192:     {
    193:       PetscInt  i;
    194:       PetscReal comp2[3] = {0.,0.,0.}, rad2;

    196:       rad2 = 0.;
    197:       for (i = 0; i < dim; i++) {
    198:         comp2[i] = qp[i] * qp[i];
    199:         rad2    += comp2[i];
    200:       }

    202:       wind[0] = -qp[1];
    203:       wind[1] = qp[0];
    204:       if (rad2 > 1.) {
    205:         PetscInt  maxI = 0;
    206:         PetscReal maxComp2 = comp2[0];

    208:         for (i = 1; i < dim; i++) {
    209:           if (comp2[i] > maxComp2) {
    210:             maxI     = i;
    211:             maxComp2 = comp2[i];
    212:           }
    213:         }
    214:         wind[maxI] = 0.;
    215:       }
    216:     }
    217:     break;
    218:   default:
    219:   {
    220:     PetscInt i;
    221:     for (i = 0; i < DIM; ++i) wind[i] = 0.0;
    222:   }
    223:   /* default: SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"No support for solution type %s",AdvectSolBumpTypes[advect->soltype]); */
    224:   }
    225:   wn      = Dot2Real(wind, n);
    226:   flux[0] = (wn > 0 ? xL[0] : xR[0]) * wn;
    227: }

    229: static PetscErrorCode PhysicsSolution_Advect(Model mod,PetscReal time,const PetscReal *x,PetscScalar *u,void *ctx)
    230: {
    231:   Physics        phys    = (Physics)ctx;
    232:   Physics_Advect *advect = (Physics_Advect*)phys->data;

    235:   switch (advect->soltype) {
    236:   case ADVECT_SOL_TILTED: {
    237:     PetscReal             x0[DIM];
    238:     Physics_Advect_Tilted *tilted = &advect->sol.tilted;
    239:     Waxpy2Real(-time,tilted->wind,x,x0);
    240:     if (x0[1] > 0) u[0] = 1.*x[0] + 3.*x[1];
    241:     else u[0] = advect->inflowState;
    242:   } break;
    243:   case ADVECT_SOL_BUMP_CAVITY:
    244:   case ADVECT_SOL_BUMP: {
    245:     Physics_Advect_Bump *bump = &advect->sol.bump;
    246:     PetscReal           x0[DIM],v[DIM],r,cost,sint;
    247:     cost  = PetscCosReal(time);
    248:     sint  = PetscSinReal(time);
    249:     x0[0] = cost*x[0] + sint*x[1];
    250:     x0[1] = -sint*x[0] + cost*x[1];
    251:     Waxpy2Real(-1,bump->center,x0,v);
    252:     r = Norm2Real(v);
    253:     switch (bump->type) {
    254:     case ADVECT_SOL_BUMP_CONE:
    255:       u[0] = PetscMax(1 - r/bump->radius,0);
    256:       break;
    257:     case ADVECT_SOL_BUMP_COS:
    258:       u[0] = 0.5 + 0.5*PetscCosReal(PetscMin(r/bump->radius,1)*PETSC_PI);
    259:       break;
    260:     }
    261:   } break;
    262:   default: SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"Unknown solution type");
    263:   }
    264:   return 0;
    265: }

    267: static PetscErrorCode PhysicsFunctional_Advect(Model mod,PetscReal time,const PetscReal *x,const PetscScalar *y,PetscReal *f,void *ctx)
    268: {
    269:   Physics        phys    = (Physics)ctx;
    270:   Physics_Advect *advect = (Physics_Advect*)phys->data;
    271:   PetscScalar    yexact[1] = {0.0};

    274:   PhysicsSolution_Advect(mod,time,x,yexact,phys);
    275:   f[advect->functional.Solution] = PetscRealPart(y[0]);
    276:   f[advect->functional.Error] = PetscAbsScalar(y[0]-yexact[0]);
    277:   return 0;
    278: }

    280: static PetscErrorCode SetUpBC_Advect(DM dm, PetscDS prob, Physics phys)
    281: {
    282:   const PetscInt inflowids[] = {100,200,300},outflowids[] = {101};
    283:   DMLabel        label;

    286:   /* Register "canned" boundary conditions and defaults for where to apply. */
    287:   DMGetLabel(dm, "Face Sets", &label);
    288:   PetscDSAddBoundary(prob, DM_BC_NATURAL_RIEMANN, "inflow",  label, ALEN(inflowids),  inflowids,  0, 0, NULL, (void (*)(void)) PhysicsBoundary_Advect_Inflow, NULL,  phys, NULL);
    289:   PetscDSAddBoundary(prob, DM_BC_NATURAL_RIEMANN, "outflow", label, ALEN(outflowids), outflowids, 0, 0, NULL, (void (*)(void)) PhysicsBoundary_Advect_Outflow, NULL, phys, NULL);
    290:   return 0;
    291: }

    293: static PetscErrorCode PhysicsCreate_Advect(Model mod,Physics phys,PetscOptionItems *PetscOptionsObject)
    294: {
    295:   Physics_Advect *advect;

    298:   phys->field_desc = PhysicsFields_Advect;
    299:   phys->riemann    = (PetscRiemannFunc)PhysicsRiemann_Advect;
    300:   PetscNew(&advect);
    301:   phys->data       = advect;
    302:   mod->setupbc = SetUpBC_Advect;

    304:   PetscOptionsHead(PetscOptionsObject,"Advect options");
    305:   {
    306:     PetscInt two = 2,dof = 1;
    307:     advect->soltype = ADVECT_SOL_TILTED;
    308:     PetscOptionsEnum("-advect_sol_type","solution type","",AdvectSolTypes,(PetscEnum)advect->soltype,(PetscEnum*)&advect->soltype,NULL);
    309:     switch (advect->soltype) {
    310:     case ADVECT_SOL_TILTED: {
    311:       Physics_Advect_Tilted *tilted = &advect->sol.tilted;
    312:       two = 2;
    313:       tilted->wind[0] = 0.0;
    314:       tilted->wind[1] = 1.0;
    315:       PetscOptionsRealArray("-advect_tilted_wind","background wind vx,vy","",tilted->wind,&two,NULL);
    316:       advect->inflowState = -2.0;
    317:       PetscOptionsRealArray("-advect_tilted_inflow","Inflow state","",&advect->inflowState,&dof,NULL);
    318:       phys->maxspeed = Norm2Real(tilted->wind);
    319:     } break;
    320:     case ADVECT_SOL_BUMP_CAVITY:
    321:     case ADVECT_SOL_BUMP: {
    322:       Physics_Advect_Bump *bump = &advect->sol.bump;
    323:       two = 2;
    324:       bump->center[0] = 2.;
    325:       bump->center[1] = 0.;
    326:       PetscOptionsRealArray("-advect_bump_center","location of center of bump x,y","",bump->center,&two,NULL);
    327:       bump->radius = 0.9;
    328:       PetscOptionsReal("-advect_bump_radius","radius of bump","",bump->radius,&bump->radius,NULL);
    329:       bump->type = ADVECT_SOL_BUMP_CONE;
    330:       PetscOptionsEnum("-advect_bump_type","type of bump","",AdvectSolBumpTypes,(PetscEnum)bump->type,(PetscEnum*)&bump->type,NULL);
    331:       phys->maxspeed = 3.;       /* radius of mesh, kludge */
    332:     } break;
    333:     }
    334:   }
    335:   PetscOptionsTail();
    336:   /* Initial/transient solution with default boundary conditions */
    337:   ModelSolutionSetDefault(mod,PhysicsSolution_Advect,phys);
    338:   /* Register "canned" functionals */
    339:   ModelFunctionalRegister(mod,"Solution",&advect->functional.Solution,PhysicsFunctional_Advect,phys);
    340:   ModelFunctionalRegister(mod,"Error",&advect->functional.Error,PhysicsFunctional_Advect,phys);
    341:   return 0;
    342: }

    344: /******************* Shallow Water ********************/
    345: typedef struct {
    346:   PetscReal gravity;
    347:   PetscReal boundaryHeight;
    348:   struct {
    349:     PetscInt Height;
    350:     PetscInt Speed;
    351:     PetscInt Energy;
    352:   } functional;
    353: } Physics_SW;
    354: typedef struct {
    355:   PetscReal h;
    356:   PetscReal uh[DIM];
    357: } SWNode;
    358: typedef union {
    359:   SWNode    swnode;
    360:   PetscReal vals[DIM+1];
    361: } SWNodeUnion;

    363: static const struct FieldDescription PhysicsFields_SW[] = {{"Height",1},{"Momentum",DIM},{NULL,0}};

    365: /*
    366:  * h_t + div(uh) = 0
    367:  * (uh)_t + div (u\otimes uh + g h^2 / 2 I) = 0
    368:  *
    369:  * */
    370: static PetscErrorCode SWFlux(Physics phys,const PetscReal *n,const SWNode *x,SWNode *f)
    371: {
    372:   Physics_SW  *sw = (Physics_SW*)phys->data;
    373:   PetscReal   uhn,u[DIM];
    374:   PetscInt     i;

    377:   Scale2Real(1./x->h,x->uh,u);
    378:   uhn  = x->uh[0] * n[0] + x->uh[1] * n[1];
    379:   f->h = uhn;
    380:   for (i=0; i<DIM; i++) f->uh[i] = u[i] * uhn + sw->gravity * PetscSqr(x->h) * n[i];
    381:   return 0;
    382: }

    384: static PetscErrorCode PhysicsBoundary_SW_Wall(PetscReal time, const PetscReal *c, const PetscReal *n, const PetscScalar *xI, PetscScalar *xG, void *ctx)
    385: {
    387:   xG[0] = xI[0];
    388:   xG[1] = -xI[1];
    389:   xG[2] = -xI[2];
    390:   return 0;
    391: }

    393: static void PhysicsRiemann_SW_HLL(PetscInt dim, PetscInt Nf, const PetscReal *qp, const PetscReal *n, const PetscScalar *xL, const PetscScalar *xR, PetscInt numConstants, const PetscScalar constants[], PetscScalar *flux, Physics phys)
    394: {
    395:   Physics_SW *sw = (Physics_SW *) phys->data;
    396:   PetscReal aL, aR;
    397:   PetscReal nn[DIM];
    398: #if !defined(PETSC_USE_COMPLEX)
    399:   const SWNode *uL = (const SWNode *) xL, *uR = (const SWNode *) xR;
    400: #else
    401:   SWNodeUnion  uLreal, uRreal;
    402:   const SWNode *uL = &uLreal.swnode;
    403:   const SWNode *uR = &uRreal.swnode;
    404: #endif
    405:   SWNodeUnion fL, fR;
    406:   PetscInt i;
    407:   PetscReal zero = 0.;

    409: #if defined(PETSC_USE_COMPLEX)
    410:   uLreal.swnode.h = 0; uRreal.swnode.h = 0;
    411:   for (i = 0; i < 1+dim; i++) uLreal.vals[i] = PetscRealPart(xL[i]);
    412:   for (i = 0; i < 1+dim; i++) uRreal.vals[i] = PetscRealPart(xR[i]);
    413: #endif
    414:   if (uL->h <= 0 || uR->h <= 0) {
    415:     for (i = 0; i < 1 + dim; i++) flux[i] = zero;
    416:     return;
    417:   } /* SETERRQ(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Reconstructed thickness is negative"); */
    418:   nn[0] = n[0];
    419:   nn[1] = n[1];
    420:   Normalize2Real(nn);
    421:   SWFlux(phys, nn, uL, &(fL.swnode));
    422:   SWFlux(phys, nn, uR, &(fR.swnode));
    423:   /* gravity wave speed */
    424:   aL = PetscSqrtReal(sw->gravity * uL->h);
    425:   aR = PetscSqrtReal(sw->gravity * uR->h);
    426:   // Defining u_tilda and v_tilda as u and v
    427:   PetscReal u_L, u_R;
    428:   u_L = Dot2Real(uL->uh,nn)/uL->h;
    429:   u_R = Dot2Real(uR->uh,nn)/uR->h;
    430:   PetscReal sL, sR;
    431:   sL = PetscMin(u_L - aL, u_R - aR);
    432:   sR = PetscMax(u_L + aL, u_R + aR);
    433:   if (sL > zero) {
    434:     for (i = 0; i < dim + 1; i++) {
    435:       flux[i] = fL.vals[i] * Norm2Real(n);
    436:     }
    437:   } else if (sR < zero) {
    438:     for (i = 0; i < dim + 1; i++) {
    439:       flux[i] = fR.vals[i] * Norm2Real(n);
    440:     }
    441:   } else {
    442:     for (i = 0; i < dim + 1; i++) {
    443:       flux[i] = ((sR * fL.vals[i] - sL * fR.vals[i] + sR * sL * (xR[i] - xL[i])) / (sR - sL)) * Norm2Real(n);
    444:     }
    445:   }
    446: }

    448: static void PhysicsRiemann_SW_Rusanov(PetscInt dim, PetscInt Nf, const PetscReal *qp, const PetscReal *n, const PetscScalar *xL, const PetscScalar *xR, PetscInt numConstants, const PetscScalar constants[], PetscScalar *flux, Physics phys)
    449: {
    450:   Physics_SW   *sw = (Physics_SW*)phys->data;
    451:   PetscReal    cL,cR,speed;
    452:   PetscReal    nn[DIM];
    453: #if !defined(PETSC_USE_COMPLEX)
    454:   const SWNode *uL = (const SWNode*)xL,*uR = (const SWNode*)xR;
    455: #else
    456:   SWNodeUnion  uLreal, uRreal;
    457:   const SWNode *uL = &uLreal.swnode;
    458:   const SWNode *uR = &uRreal.swnode;
    459: #endif
    460:   SWNodeUnion  fL,fR;
    461:   PetscInt     i;
    462:   PetscReal    zero=0.;

    464: #if defined(PETSC_USE_COMPLEX)
    465:   uLreal.swnode.h = 0; uRreal.swnode.h = 0;
    466:   for (i = 0; i < 1+dim; i++) uLreal.vals[i] = PetscRealPart(xL[i]);
    467:   for (i = 0; i < 1+dim; i++) uRreal.vals[i] = PetscRealPart(xR[i]);
    468: #endif
    469:   if (uL->h < 0 || uR->h < 0) {for (i=0; i<1+dim; i++) flux[i] = zero/zero; return;} /* reconstructed thickness is negative */
    470:   nn[0] = n[0];
    471:   nn[1] = n[1];
    472:   Normalize2Real(nn);
    473:   SWFlux(phys,nn,uL,&(fL.swnode));
    474:   SWFlux(phys,nn,uR,&(fR.swnode));
    475:   cL    = PetscSqrtReal(sw->gravity*uL->h);
    476:   cR    = PetscSqrtReal(sw->gravity*uR->h); /* gravity wave speed */
    477:   speed = PetscMax(PetscAbsReal(Dot2Real(uL->uh,nn)/uL->h) + cL,PetscAbsReal(Dot2Real(uR->uh,nn)/uR->h) + cR);
    478:   for (i=0; i<1+dim; i++) flux[i] = (0.5*(fL.vals[i] + fR.vals[i]) + 0.5*speed*(xL[i] - xR[i])) * Norm2Real(n);
    479: }

    481: static PetscErrorCode PhysicsSolution_SW(Model mod,PetscReal time,const PetscReal *x,PetscScalar *u,void *ctx)
    482: {
    483:   PetscReal dx[2],r,sigma;

    487:   dx[0] = x[0] - 1.5;
    488:   dx[1] = x[1] - 1.0;
    489:   r     = Norm2Real(dx);
    490:   sigma = 0.5;
    491:   u[0]  = 1 + 2*PetscExpReal(-PetscSqr(r)/(2*PetscSqr(sigma)));
    492:   u[1]  = 0.0;
    493:   u[2]  = 0.0;
    494:   return 0;
    495: }

    497: static PetscErrorCode PhysicsFunctional_SW(Model mod,PetscReal time,const PetscReal *coord,const PetscScalar *xx,PetscReal *f,void *ctx)
    498: {
    499:   Physics      phys = (Physics)ctx;
    500:   Physics_SW   *sw  = (Physics_SW*)phys->data;
    501:   const SWNode *x   = (const SWNode*)xx;
    502:   PetscReal  u[2];
    503:   PetscReal    h;

    506:   h = x->h;
    507:   Scale2Real(1./x->h,x->uh,u);
    508:   f[sw->functional.Height] = h;
    509:   f[sw->functional.Speed]  = Norm2Real(u) + PetscSqrtReal(sw->gravity*h);
    510:   f[sw->functional.Energy] = 0.5*(Dot2Real(x->uh,u) + sw->gravity*PetscSqr(h));
    511:   return 0;
    512: }

    514: static PetscErrorCode SetUpBC_SW(DM dm, PetscDS prob,Physics phys)
    515: {
    516:   const PetscInt wallids[] = {100,101,200,300};
    517:   DMLabel        label;

    520:   DMGetLabel(dm, "Face Sets", &label);
    521:   PetscDSAddBoundary(prob, DM_BC_NATURAL_RIEMANN, "wall", label, ALEN(wallids), wallids, 0, 0, NULL, (void (*)(void)) PhysicsBoundary_SW_Wall, NULL, phys, NULL);
    522:   return 0;
    523: }

    525: static PetscErrorCode PhysicsCreate_SW(Model mod,Physics phys,PetscOptionItems *PetscOptionsObject)
    526: {
    527:   Physics_SW     *sw;
    528:   char           sw_riemann[64] = "rusanov";

    531:   phys->field_desc = PhysicsFields_SW;
    532:   PetscNew(&sw);
    533:   phys->data    = sw;
    534:   mod->setupbc  = SetUpBC_SW;

    536:   PetscFunctionListAdd(&PhysicsRiemannList_SW, "rusanov", PhysicsRiemann_SW_Rusanov);
    537:   PetscFunctionListAdd(&PhysicsRiemannList_SW, "hll", PhysicsRiemann_SW_HLL);

    539:   PetscOptionsHead(PetscOptionsObject,"SW options");
    540:   {
    541:     void (*PhysicsRiemann_SW)(PetscInt, PetscInt, const PetscReal *, const PetscReal *, const PetscScalar *, const PetscScalar *, PetscInt, const PetscScalar, PetscScalar *, Physics);
    542:     sw->gravity = 1.0;
    543:     PetscOptionsReal("-sw_gravity","Gravitational constant","",sw->gravity,&sw->gravity,NULL);
    544:     PetscOptionsFList("-sw_riemann","Riemann solver","",PhysicsRiemannList_SW,sw_riemann,sw_riemann,sizeof sw_riemann,NULL);
    545:     PetscFunctionListFind(PhysicsRiemannList_SW,sw_riemann,&PhysicsRiemann_SW);
    546:     phys->riemann = (PetscRiemannFunc) PhysicsRiemann_SW;
    547:   }
    548:   PetscOptionsTail();
    549:   phys->maxspeed = PetscSqrtReal(2.0*sw->gravity); /* Mach 1 for depth of 2 */

    551:   ModelSolutionSetDefault(mod,PhysicsSolution_SW,phys);
    552:   ModelFunctionalRegister(mod,"Height",&sw->functional.Height,PhysicsFunctional_SW,phys);
    553:   ModelFunctionalRegister(mod,"Speed",&sw->functional.Speed,PhysicsFunctional_SW,phys);
    554:   ModelFunctionalRegister(mod,"Energy",&sw->functional.Energy,PhysicsFunctional_SW,phys);

    556:   return 0;
    557: }

    559: /******************* Euler Density Shock (EULER_IV_SHOCK,EULER_SS_SHOCK) ********************/
    560: /* An initial-value and self-similar solutions of the compressible Euler equations */
    561: /* Ravi Samtaney and D. I. Pullin */
    562: /* Phys. Fluids 8, 2650 (1996); http://dx.doi.org/10.1063/1.869050 */
    563: typedef enum {EULER_PAR_GAMMA,EULER_PAR_RHOR,EULER_PAR_AMACH,EULER_PAR_ITANA,EULER_PAR_SIZE} EulerParamIdx;
    564: typedef enum {EULER_IV_SHOCK,EULER_SS_SHOCK,EULER_SHOCK_TUBE,EULER_LINEAR_WAVE} EulerType;
    565: typedef struct {
    566:   PetscReal r;
    567:   PetscReal ru[DIM];
    568:   PetscReal E;
    569: } EulerNode;
    570: typedef union {
    571:   EulerNode eulernode;
    572:   PetscReal vals[DIM+2];
    573: } EulerNodeUnion;
    574: typedef PetscErrorCode (*EquationOfState)(const PetscReal*, const EulerNode*, PetscReal*);
    575: typedef struct {
    576:   EulerType       type;
    577:   PetscReal       pars[EULER_PAR_SIZE];
    578:   EquationOfState sound;
    579:   struct {
    580:     PetscInt Density;
    581:     PetscInt Momentum;
    582:     PetscInt Energy;
    583:     PetscInt Pressure;
    584:     PetscInt Speed;
    585:   } monitor;
    586: } Physics_Euler;

    588: static const struct FieldDescription PhysicsFields_Euler[] = {{"Density",1},{"Momentum",DIM},{"Energy",1},{NULL,0}};

    590: /* initial condition */
    591: int initLinearWave(EulerNode *ux, const PetscReal gamma, const PetscReal coord[], const PetscReal Lx);
    592: static PetscErrorCode PhysicsSolution_Euler(Model mod, PetscReal time, const PetscReal *x, PetscScalar *u, void *ctx)
    593: {
    594:   PetscInt i;
    595:   Physics         phys = (Physics)ctx;
    596:   Physics_Euler   *eu  = (Physics_Euler*)phys->data;
    597:   EulerNode       *uu  = (EulerNode*)u;
    598:   PetscReal        p0,gamma,c;

    602:   for (i=0; i<DIM; i++) uu->ru[i] = 0.0; /* zero out initial velocity */
    603:   /* set E and rho */
    604:   gamma = eu->pars[EULER_PAR_GAMMA];

    606:   if (eu->type==EULER_IV_SHOCK || eu->type==EULER_SS_SHOCK) {
    607:     /******************* Euler Density Shock ********************/
    608:     /* On initial-value and self-similar solutions of the compressible Euler equations */
    609:     /* Ravi Samtaney and D. I. Pullin */
    610:     /* Phys. Fluids 8, 2650 (1996); http://dx.doi.org/10.1063/1.869050 */
    611:     /* initial conditions 1: left of shock, 0: left of discontinuity 2: right of discontinuity,  */
    612:     p0 = 1.;
    613:     if (x[0] < 0.0 + x[1]*eu->pars[EULER_PAR_ITANA]) {
    614:       if (x[0] < mod->bounds[0]*0.5) { /* left of shock (1) */
    615:         PetscReal amach,rho,press,gas1,p1;
    616:         amach = eu->pars[EULER_PAR_AMACH];
    617:         rho = 1.;
    618:         press = p0;
    619:         p1 = press*(1.0+2.0*gamma/(gamma+1.0)*(amach*amach-1.0));
    620:         gas1 = (gamma-1.0)/(gamma+1.0);
    621:         uu->r = rho*(p1/press+gas1)/(gas1*p1/press+1.0);
    622:         uu->ru[0]   = ((uu->r - rho)*PetscSqrtReal(gamma*press/rho)*amach);
    623:         uu->E = p1/(gamma-1.0) + .5/uu->r*uu->ru[0]*uu->ru[0];
    624:       }
    625:       else { /* left of discontinuity (0) */
    626:         uu->r = 1.; /* rho = 1 */
    627:         uu->E = p0/(gamma-1.0);
    628:       }
    629:     }
    630:     else { /* right of discontinuity (2) */
    631:       uu->r = eu->pars[EULER_PAR_RHOR];
    632:       uu->E = p0/(gamma-1.0);
    633:     }
    634:   }
    635:   else if (eu->type==EULER_SHOCK_TUBE) {
    636:     /* For (x<x0) set (rho,u,p)=(8,0,10) and for (x>x0) set (rho,u,p)=(1,0,1). Choose x0 to the midpoint of the domain in the x-direction. */
    637:     if (x[0] < 0.0) {
    638:       uu->r = 8.;
    639:       uu->E = 10./(gamma-1.);
    640:     }
    641:     else {
    642:       uu->r = 1.;
    643:       uu->E = 1./(gamma-1.);
    644:     }
    645:   }
    646:   else if (eu->type==EULER_LINEAR_WAVE) {
    647:     initLinearWave( uu, gamma, x, mod->bounds[1] - mod->bounds[0]);
    648:   }
    649:   else SETERRQ(mod->comm,PETSC_ERR_SUP,"Unknown type %d",eu->type);

    651:   /* set phys->maxspeed: (mod->maxspeed = phys->maxspeed) in main; */
    652:   eu->sound(&gamma,uu,&c);
    653:   c = (uu->ru[0]/uu->r) + c;
    654:   if (c > phys->maxspeed) phys->maxspeed = c;

    656:   return 0;
    657: }

    659: static PetscErrorCode Pressure_PG(const PetscReal gamma,const EulerNode *x,PetscReal *p)
    660: {
    661:   PetscReal ru2;

    664:   ru2  = DotDIMReal(x->ru,x->ru);
    665:   (*p)=(x->E - 0.5*ru2/x->r)*(gamma - 1.0); /* (E - rho V^2/2)(gamma-1) = e rho (gamma-1) */
    666:   return 0;
    667: }

    669: static PetscErrorCode SpeedOfSound_PG(const PetscReal *gamma, const EulerNode *x, PetscReal *c)
    670: {
    671:   PetscReal p;

    674:   Pressure_PG(*gamma,x,&p);
    676:   /* pars[EULER_PAR_GAMMA] = heat capacity ratio */
    677:   (*c)=PetscSqrtReal(*gamma * p / x->r);
    678:   return 0;
    679: }

    681: /*
    682:  * x = (rho,rho*(u_1),...,rho*e)^T
    683:  * x_t+div(f_1(x))+...+div(f_DIM(x)) = 0
    684:  *
    685:  * f_i(x) = u_i*x+(0,0,...,p,...,p*u_i)^T
    686:  *
    687:  */
    688: static PetscErrorCode EulerFlux(Physics phys,const PetscReal *n,const EulerNode *x,EulerNode *f)
    689: {
    690:   Physics_Euler *eu = (Physics_Euler*)phys->data;
    691:   PetscReal     nu,p;
    692:   PetscInt      i;

    695:   Pressure_PG(eu->pars[EULER_PAR_GAMMA],x,&p);
    696:   nu = DotDIMReal(x->ru,n);
    697:   f->r = nu;   /* A rho u */
    698:   nu /= x->r;  /* A u */
    699:   for (i=0; i<DIM; i++) f->ru[i] = nu * x->ru[i] + n[i]*p;  /* r u^2 + p */
    700:   f->E = nu * (x->E + p); /* u(e+p) */
    701:   return 0;
    702: }

    704: /* PetscReal* => EulerNode* conversion */
    705: static PetscErrorCode PhysicsBoundary_Euler_Wall(PetscReal time, const PetscReal *c, const PetscReal *n, const PetscScalar *a_xI, PetscScalar *a_xG, void *ctx)
    706: {
    707:   PetscInt    i;
    708:   const EulerNode *xI = (const EulerNode*)a_xI;
    709:   EulerNode       *xG = (EulerNode*)a_xG;
    710:   Physics         phys = (Physics)ctx;
    711:   Physics_Euler   *eu  = (Physics_Euler*)phys->data;
    713:   xG->r = xI->r;           /* ghost cell density - same */
    714:   xG->E = xI->E;           /* ghost cell energy - same */
    715:   if (n[1] != 0.) {        /* top and bottom */
    716:     xG->ru[0] =  xI->ru[0]; /* copy tang to wall */
    717:     xG->ru[1] = -xI->ru[1]; /* reflect perp to t/b wall */
    718:   }
    719:   else { /* sides */
    720:     for (i=0; i<DIM; i++) xG->ru[i] = xI->ru[i]; /* copy */
    721:   }
    722:   if (eu->type == EULER_LINEAR_WAVE) { /* debug */
    723: #if 0
    724:     PetscPrintf(PETSC_COMM_WORLD,"%s coord=%g,%g\n",PETSC_FUNCTION_NAME,c[0],c[1]);
    725: #endif
    726:   }
    727:   return 0;
    728: }
    729: int godunovflux( const PetscScalar *ul, const PetscScalar *ur, PetscScalar *flux, const PetscReal *nn, const int *ndim, const PetscReal *gamma);
    730: /* PetscReal* => EulerNode* conversion */
    731: static void PhysicsRiemann_Euler_Godunov( PetscInt dim, PetscInt Nf, const PetscReal *qp, const PetscReal *n,
    732:                                           const PetscScalar *xL, const PetscScalar *xR, PetscInt numConstants, const PetscScalar constants[], PetscScalar *flux, Physics phys)
    733: {
    734:   Physics_Euler   *eu = (Physics_Euler*)phys->data;
    735:   PetscReal       cL,cR,speed,velL,velR,nn[DIM],s2;
    736:   PetscInt        i;
    737:   PetscErrorCode  ierr;

    740:   for (i=0,s2=0.; i<DIM; i++) {
    741:     nn[i] = n[i];
    742:     s2 += nn[i]*nn[i];
    743:   }
    744:   s2 = PetscSqrtReal(s2); /* |n|_2 = sum(n^2)^1/2 */
    745:   for (i=0.; i<DIM; i++) nn[i] /= s2;
    746:   if (0) { /* Rusanov */
    747:     const EulerNode *uL = (const EulerNode*)xL,*uR = (const EulerNode*)xR;
    748:     EulerNodeUnion  fL,fR;
    749:     EulerFlux(phys,nn,uL,&(fL.eulernode));
    750:     EulerFlux(phys,nn,uR,&(fR.eulernode));
    751:     eu->sound(&eu->pars[EULER_PAR_GAMMA],uL,&cL);if (ierr) exit(13);
    752:     eu->sound(&eu->pars[EULER_PAR_GAMMA],uR,&cR);if (ierr) exit(14);
    753:     velL = DotDIMReal(uL->ru,nn)/uL->r;
    754:     velR = DotDIMReal(uR->ru,nn)/uR->r;
    755:     speed = PetscMax(velR + cR, velL + cL);
    756:     for (i=0; i<2+dim; i++) flux[i] = 0.5*((fL.vals[i]+fR.vals[i]) + speed*(xL[i] - xR[i]))*s2;
    757:   }
    758:   else {
    759:     int dim = DIM;
    760:     /* int iwave =  */
    761:     godunovflux(xL, xR, flux, nn, &dim, &eu->pars[EULER_PAR_GAMMA]);
    762:     for (i=0; i<2+dim; i++) flux[i] *= s2;
    763:   }
    764:   return;
    765: }

    767: static PetscErrorCode PhysicsFunctional_Euler(Model mod,PetscReal time,const PetscReal *coord,const PetscScalar *xx,PetscReal *f,void *ctx)
    768: {
    769:   Physics         phys = (Physics)ctx;
    770:   Physics_Euler   *eu  = (Physics_Euler*)phys->data;
    771:   const EulerNode *x   = (const EulerNode*)xx;
    772:   PetscReal       p;

    775:   f[eu->monitor.Density]  = x->r;
    776:   f[eu->monitor.Momentum] = NormDIM(x->ru);
    777:   f[eu->monitor.Energy]   = x->E;
    778:   f[eu->monitor.Speed]    = NormDIM(x->ru)/x->r;
    779:   Pressure_PG(eu->pars[EULER_PAR_GAMMA], x, &p);
    780:   f[eu->monitor.Pressure] = p;
    781:   return 0;
    782: }

    784: static PetscErrorCode SetUpBC_Euler(DM dm, PetscDS prob,Physics phys)
    785: {
    786:   Physics_Euler   *eu = (Physics_Euler *) phys->data;
    787:   DMLabel         label;

    790:   DMGetLabel(dm, "Face Sets", &label);
    791:   if (eu->type == EULER_LINEAR_WAVE) {
    792:     const PetscInt wallids[] = {100,101};
    793:     PetscDSAddBoundary(prob, DM_BC_NATURAL_RIEMANN, "wall", label, ALEN(wallids), wallids, 0, 0, NULL, (void (*)(void)) PhysicsBoundary_Euler_Wall, NULL, phys, NULL);
    794:   }
    795:   else {
    796:     const PetscInt wallids[] = {100,101,200,300};
    797:     PetscDSAddBoundary(prob, DM_BC_NATURAL_RIEMANN, "wall", label, ALEN(wallids), wallids, 0, 0, NULL, (void (*)(void)) PhysicsBoundary_Euler_Wall, NULL, phys, NULL);
    798:   }
    799:   return 0;
    800: }

    802: static PetscErrorCode PhysicsCreate_Euler(Model mod,Physics phys,PetscOptionItems *PetscOptionsObject)
    803: {
    804:   Physics_Euler   *eu;

    807:   phys->field_desc = PhysicsFields_Euler;
    808:   phys->riemann = (PetscRiemannFunc) PhysicsRiemann_Euler_Godunov;
    809:   PetscNew(&eu);
    810:   phys->data    = eu;
    811:   mod->setupbc = SetUpBC_Euler;
    812:   PetscOptionsHead(PetscOptionsObject,"Euler options");
    813:   {
    814:     PetscReal alpha;
    815:     char type[64] = "linear_wave";
    816:     PetscBool  is;
    817:     eu->pars[EULER_PAR_GAMMA] = 1.4;
    818:     eu->pars[EULER_PAR_AMACH] = 2.02;
    819:     eu->pars[EULER_PAR_RHOR] = 3.0;
    820:     eu->pars[EULER_PAR_ITANA] = 0.57735026918963; /* angle of Euler self similar (SS) shock */
    821:     PetscOptionsReal("-eu_gamma","Heat capacity ratio","",eu->pars[EULER_PAR_GAMMA],&eu->pars[EULER_PAR_GAMMA],NULL);
    822:     PetscOptionsReal("-eu_amach","Shock speed (Mach)","",eu->pars[EULER_PAR_AMACH],&eu->pars[EULER_PAR_AMACH],NULL);
    823:     PetscOptionsReal("-eu_rho2","Density right of discontinuity","",eu->pars[EULER_PAR_RHOR],&eu->pars[EULER_PAR_RHOR],NULL);
    824:     alpha = 60.;
    825:     PetscOptionsReal("-eu_alpha","Angle of discontinuity","",alpha,&alpha,NULL);
    827:     eu->pars[EULER_PAR_ITANA] = 1./PetscTanReal( alpha * PETSC_PI / 180.0);
    828:     PetscOptionsString("-eu_type","Type of Euler test","",type,type,sizeof(type),NULL);
    829:     PetscStrcmp(type,"linear_wave", &is);
    830:     if (is) {
    831:       /* Remember this should be periodic */
    832:       eu->type = EULER_LINEAR_WAVE;
    833:       PetscPrintf(PETSC_COMM_WORLD,"%s set Euler type: %s\n",PETSC_FUNCTION_NAME,"linear_wave");
    834:     }
    835:     else {
    837:       PetscStrcmp(type,"iv_shock", &is);
    838:       if (is) {
    839:         eu->type = EULER_IV_SHOCK;
    840:         PetscPrintf(PETSC_COMM_WORLD,"%s set Euler type: %s\n",PETSC_FUNCTION_NAME,"iv_shock");
    841:       }
    842:       else {
    843:         PetscStrcmp(type,"ss_shock", &is);
    844:         if (is) {
    845:           eu->type = EULER_SS_SHOCK;
    846:           PetscPrintf(PETSC_COMM_WORLD,"%s set Euler type: %s\n",PETSC_FUNCTION_NAME,"ss_shock");
    847:         }
    848:         else {
    849:           PetscStrcmp(type,"shock_tube", &is);
    850:           if (is) eu->type = EULER_SHOCK_TUBE;
    851:           else SETERRQ(PETSC_COMM_WORLD,PETSC_ERR_SUP,"Unknown Euler type %s",type);
    852:           PetscPrintf(PETSC_COMM_WORLD,"%s set Euler type: %s\n",PETSC_FUNCTION_NAME,"shock_tube");
    853:         }
    854:       }
    855:     }
    856:   }
    857:   PetscOptionsTail();
    858:   eu->sound = SpeedOfSound_PG;
    859:   phys->maxspeed = 0.; /* will get set in solution */
    860:   ModelSolutionSetDefault(mod,PhysicsSolution_Euler,phys);
    861:   ModelFunctionalRegister(mod,"Speed",&eu->monitor.Speed,PhysicsFunctional_Euler,phys);
    862:   ModelFunctionalRegister(mod,"Energy",&eu->monitor.Energy,PhysicsFunctional_Euler,phys);
    863:   ModelFunctionalRegister(mod,"Density",&eu->monitor.Density,PhysicsFunctional_Euler,phys);
    864:   ModelFunctionalRegister(mod,"Momentum",&eu->monitor.Momentum,PhysicsFunctional_Euler,phys);
    865:   ModelFunctionalRegister(mod,"Pressure",&eu->monitor.Pressure,PhysicsFunctional_Euler,phys);

    867:   return 0;
    868: }

    870: static PetscErrorCode ErrorIndicator_Simple(PetscInt dim, PetscReal volume, PetscInt numComps, const PetscScalar u[], const PetscScalar grad[], PetscReal *error, void *ctx)
    871: {
    872:   PetscReal      err = 0.;
    873:   PetscInt       i, j;

    876:   for (i = 0; i < numComps; i++) {
    877:     for (j = 0; j < dim; j++) {
    878:       err += PetscSqr(PetscRealPart(grad[i * dim + j]));
    879:     }
    880:   }
    881:   *error = volume * err;
    882:   return 0;
    883: }

    885: PetscErrorCode CreatePartitionVec(DM dm, DM *dmCell, Vec *partition)
    886: {
    887:   PetscSF        sfPoint;
    888:   PetscSection   coordSection;
    889:   Vec            coordinates;
    890:   PetscSection   sectionCell;
    891:   PetscScalar    *part;
    892:   PetscInt       cStart, cEnd, c;
    893:   PetscMPIInt    rank;

    896:   DMGetCoordinateSection(dm, &coordSection);
    897:   DMGetCoordinatesLocal(dm, &coordinates);
    898:   DMClone(dm, dmCell);
    899:   DMGetPointSF(dm, &sfPoint);
    900:   DMSetPointSF(*dmCell, sfPoint);
    901:   DMSetCoordinateSection(*dmCell, PETSC_DETERMINE, coordSection);
    902:   DMSetCoordinatesLocal(*dmCell, coordinates);
    903:   MPI_Comm_rank(PetscObjectComm((PetscObject)dm), &rank);
    904:   PetscSectionCreate(PetscObjectComm((PetscObject)dm), &sectionCell);
    905:   DMPlexGetHeightStratum(*dmCell, 0, &cStart, &cEnd);
    906:   PetscSectionSetChart(sectionCell, cStart, cEnd);
    907:   for (c = cStart; c < cEnd; ++c) {
    908:     PetscSectionSetDof(sectionCell, c, 1);
    909:   }
    910:   PetscSectionSetUp(sectionCell);
    911:   DMSetLocalSection(*dmCell, sectionCell);
    912:   PetscSectionDestroy(&sectionCell);
    913:   DMCreateLocalVector(*dmCell, partition);
    914:   PetscObjectSetName((PetscObject)*partition, "partition");
    915:   VecGetArray(*partition, &part);
    916:   for (c = cStart; c < cEnd; ++c) {
    917:     PetscScalar *p;

    919:     DMPlexPointLocalRef(*dmCell, c, part, &p);
    920:     p[0] = rank;
    921:   }
    922:   VecRestoreArray(*partition, &part);
    923:   return 0;
    924: }

    926: PetscErrorCode CreateMassMatrix(DM dm, Vec *massMatrix, User user)
    927: {
    928:   DM                plex, dmMass, dmFace, dmCell, dmCoord;
    929:   PetscSection      coordSection;
    930:   Vec               coordinates, facegeom, cellgeom;
    931:   PetscSection      sectionMass;
    932:   PetscScalar       *m;
    933:   const PetscScalar *fgeom, *cgeom, *coords;
    934:   PetscInt          vStart, vEnd, v;

    937:   DMConvert(dm, DMPLEX, &plex);
    938:   DMGetCoordinateSection(dm, &coordSection);
    939:   DMGetCoordinatesLocal(dm, &coordinates);
    940:   DMClone(dm, &dmMass);
    941:   DMSetCoordinateSection(dmMass, PETSC_DETERMINE, coordSection);
    942:   DMSetCoordinatesLocal(dmMass, coordinates);
    943:   PetscSectionCreate(PetscObjectComm((PetscObject)dm), &sectionMass);
    944:   DMPlexGetDepthStratum(dm, 0, &vStart, &vEnd);
    945:   PetscSectionSetChart(sectionMass, vStart, vEnd);
    946:   for (v = vStart; v < vEnd; ++v) {
    947:     PetscInt numFaces;

    949:     DMPlexGetSupportSize(dmMass, v, &numFaces);
    950:     PetscSectionSetDof(sectionMass, v, numFaces*numFaces);
    951:   }
    952:   PetscSectionSetUp(sectionMass);
    953:   DMSetLocalSection(dmMass, sectionMass);
    954:   PetscSectionDestroy(&sectionMass);
    955:   DMGetLocalVector(dmMass, massMatrix);
    956:   VecGetArray(*massMatrix, &m);
    957:   DMPlexGetGeometryFVM(plex, &facegeom, &cellgeom, NULL);
    958:   VecGetDM(facegeom, &dmFace);
    959:   VecGetArrayRead(facegeom, &fgeom);
    960:   VecGetDM(cellgeom, &dmCell);
    961:   VecGetArrayRead(cellgeom, &cgeom);
    962:   DMGetCoordinateDM(dm, &dmCoord);
    963:   VecGetArrayRead(coordinates, &coords);
    964:   for (v = vStart; v < vEnd; ++v) {
    965:     const PetscInt        *faces;
    966:     PetscFVFaceGeom       *fgA, *fgB, *cg;
    967:     PetscScalar           *vertex;
    968:     PetscInt               numFaces, sides[2], f, g;

    970:     DMPlexPointLocalRead(dmCoord, v, coords, &vertex);
    971:     DMPlexGetSupportSize(dmMass, v, &numFaces);
    972:     DMPlexGetSupport(dmMass, v, &faces);
    973:     for (f = 0; f < numFaces; ++f) {
    974:       sides[0] = faces[f];
    975:       DMPlexPointLocalRead(dmFace, faces[f], fgeom, &fgA);
    976:       for (g = 0; g < numFaces; ++g) {
    977:         const PetscInt *cells = NULL;
    978:         PetscReal      area   = 0.0;
    979:         PetscInt       numCells;

    981:         sides[1] = faces[g];
    982:         DMPlexPointLocalRead(dmFace, faces[g], fgeom, &fgB);
    983:         DMPlexGetJoin(dmMass, 2, sides, &numCells, &cells);
    985:         DMPlexPointLocalRead(dmCell, cells[0], cgeom, &cg);
    986:         area += PetscAbsScalar((vertex[0] - cg->centroid[0])*(fgA->centroid[1] - cg->centroid[1]) - (vertex[1] - cg->centroid[1])*(fgA->centroid[0] - cg->centroid[0]));
    987:         area += PetscAbsScalar((vertex[0] - cg->centroid[0])*(fgB->centroid[1] - cg->centroid[1]) - (vertex[1] - cg->centroid[1])*(fgB->centroid[0] - cg->centroid[0]));
    988:         m[f*numFaces+g] = Dot2Real(fgA->normal, fgB->normal)*area*0.5;
    989:         DMPlexRestoreJoin(dmMass, 2, sides, &numCells, &cells);
    990:       }
    991:     }
    992:   }
    993:   VecRestoreArrayRead(facegeom, &fgeom);
    994:   VecRestoreArrayRead(cellgeom, &cgeom);
    995:   VecRestoreArrayRead(coordinates, &coords);
    996:   VecRestoreArray(*massMatrix, &m);
    997:   DMDestroy(&dmMass);
    998:   DMDestroy(&plex);
    999:   return 0;
    1000: }

    1002: /* Behavior will be different for multi-physics or when using non-default boundary conditions */
    1003: static PetscErrorCode ModelSolutionSetDefault(Model mod,SolutionFunction func,void *ctx)
    1004: {
    1006:   mod->solution    = func;
    1007:   mod->solutionctx = ctx;
    1008:   return 0;
    1009: }

    1011: static PetscErrorCode ModelFunctionalRegister(Model mod,const char *name,PetscInt *offset,FunctionalFunction func,void *ctx)
    1012: {
    1013:   FunctionalLink link,*ptr;
    1014:   PetscInt       lastoffset = -1;

    1017:   for (ptr=&mod->functionalRegistry; *ptr; ptr = &(*ptr)->next) lastoffset = (*ptr)->offset;
    1018:   PetscNew(&link);
    1019:   PetscStrallocpy(name,&link->name);
    1020:   link->offset = lastoffset + 1;
    1021:   link->func   = func;
    1022:   link->ctx    = ctx;
    1023:   link->next   = NULL;
    1024:   *ptr         = link;
    1025:   *offset      = link->offset;
    1026:   return 0;
    1027: }

    1029: static PetscErrorCode ModelFunctionalSetFromOptions(Model mod,PetscOptionItems *PetscOptionsObject)
    1030: {
    1031:   PetscInt       i,j;
    1032:   FunctionalLink link;
    1033:   char           *names[256];

    1036:   mod->numMonitored = ALEN(names);
    1037:   PetscOptionsStringArray("-monitor","list of functionals to monitor","",names,&mod->numMonitored,NULL);
    1038:   /* Create list of functionals that will be computed somehow */
    1039:   PetscMalloc1(mod->numMonitored,&mod->functionalMonitored);
    1040:   /* Create index of calls that we will have to make to compute these functionals (over-allocation in general). */
    1041:   PetscMalloc1(mod->numMonitored,&mod->functionalCall);
    1042:   mod->numCall = 0;
    1043:   for (i=0; i<mod->numMonitored; i++) {
    1044:     for (link=mod->functionalRegistry; link; link=link->next) {
    1045:       PetscBool match;
    1046:       PetscStrcasecmp(names[i],link->name,&match);
    1047:       if (match) break;
    1048:     }
    1050:     mod->functionalMonitored[i] = link;
    1051:     for (j=0; j<i; j++) {
    1052:       if (mod->functionalCall[j]->func == link->func && mod->functionalCall[j]->ctx == link->ctx) goto next_name;
    1053:     }
    1054:     mod->functionalCall[mod->numCall++] = link; /* Just points to the first link using the result. There may be more results. */
    1055: next_name:
    1056:     PetscFree(names[i]);
    1057:   }

    1059:   /* Find out the maximum index of any functional computed by a function we will be calling (even if we are not using it) */
    1060:   mod->maxComputed = -1;
    1061:   for (link=mod->functionalRegistry; link; link=link->next) {
    1062:     for (i=0; i<mod->numCall; i++) {
    1063:       FunctionalLink call = mod->functionalCall[i];
    1064:       if (link->func == call->func && link->ctx == call->ctx) {
    1065:         mod->maxComputed = PetscMax(mod->maxComputed,link->offset);
    1066:       }
    1067:     }
    1068:   }
    1069:   return 0;
    1070: }

    1072: static PetscErrorCode FunctionalLinkDestroy(FunctionalLink *link)
    1073: {
    1074:   FunctionalLink l,next;

    1077:   if (!link) return 0;
    1078:   l     = *link;
    1079:   *link = NULL;
    1080:   for (; l; l=next) {
    1081:     next = l->next;
    1082:     PetscFree(l->name);
    1083:     PetscFree(l);
    1084:   }
    1085:   return 0;
    1086: }

    1088: /* put the solution callback into a functional callback */
    1089: static PetscErrorCode SolutionFunctional(PetscInt dim, PetscReal time, const PetscReal x[], PetscInt Nf, PetscScalar *u, void *modctx)
    1090: {
    1091:   Model          mod;
    1092:   mod  = (Model) modctx;
    1093:   (*mod->solution)(mod, time, x, u, mod->solutionctx);
    1094:   return 0;
    1095: }

    1097: PetscErrorCode SetInitialCondition(DM dm, Vec X, User user)
    1098: {
    1099:   PetscErrorCode     (*func[1]) (PetscInt dim, PetscReal time, const PetscReal x[], PetscInt Nf, PetscScalar *u, void *ctx);
    1100:   void               *ctx[1];
    1101:   Model              mod = user->model;

    1104:   func[0] = SolutionFunctional;
    1105:   ctx[0]  = (void *) mod;
    1106:   DMProjectFunction(dm,0.0,func,ctx,INSERT_ALL_VALUES,X);
    1107:   return 0;
    1108: }

    1110: static PetscErrorCode OutputVTK(DM dm, const char *filename, PetscViewer *viewer)
    1111: {
    1113:   PetscViewerCreate(PetscObjectComm((PetscObject)dm), viewer);
    1114:   PetscViewerSetType(*viewer, PETSCVIEWERVTK);
    1115:   PetscViewerFileSetName(*viewer, filename);
    1116:   return 0;
    1117: }

    1119: static PetscErrorCode MonitorVTK(TS ts,PetscInt stepnum,PetscReal time,Vec X,void *ctx)
    1120: {
    1121:   User           user = (User)ctx;
    1122:   DM             dm, plex;
    1123:   PetscViewer    viewer;
    1124:   char           filename[PETSC_MAX_PATH_LEN],*ftable = NULL;
    1125:   PetscReal      xnorm;

    1128:   PetscObjectSetName((PetscObject) X, "u");
    1129:   VecGetDM(X,&dm);
    1130:   VecNorm(X,NORM_INFINITY,&xnorm);

    1132:   if (stepnum >= 0) {
    1133:     stepnum += user->monitorStepOffset;
    1134:   }
    1135:   if (stepnum >= 0) {           /* No summary for final time */
    1136:     Model             mod = user->model;
    1137:     Vec               cellgeom;
    1138:     PetscInt          c,cStart,cEnd,fcount,i;
    1139:     size_t            ftableused,ftablealloc;
    1140:     const PetscScalar *cgeom,*x;
    1141:     DM                dmCell;
    1142:     DMLabel           vtkLabel;
    1143:     PetscReal         *fmin,*fmax,*fintegral,*ftmp;

    1145:     DMConvert(dm, DMPLEX, &plex);
    1146:     DMPlexGetGeometryFVM(plex, NULL, &cellgeom, NULL);
    1147:     fcount = mod->maxComputed+1;
    1148:     PetscMalloc4(fcount,&fmin,fcount,&fmax,fcount,&fintegral,fcount,&ftmp);
    1149:     for (i=0; i<fcount; i++) {
    1150:       fmin[i]      = PETSC_MAX_REAL;
    1151:       fmax[i]      = PETSC_MIN_REAL;
    1152:       fintegral[i] = 0;
    1153:     }
    1154:     VecGetDM(cellgeom,&dmCell);
    1155:     DMPlexGetSimplexOrBoxCells(dmCell,0,&cStart,&cEnd);
    1156:     VecGetArrayRead(cellgeom,&cgeom);
    1157:     VecGetArrayRead(X,&x);
    1158:     DMGetLabel(dm,"vtk",&vtkLabel);
    1159:     for (c = cStart; c < cEnd; ++c) {
    1160:       PetscFVCellGeom       *cg;
    1161:       const PetscScalar     *cx    = NULL;
    1162:       PetscInt              vtkVal = 0;

    1164:       /* not that these two routines as currently implemented work for any dm with a
    1165:        * localSection/globalSection */
    1166:       DMPlexPointLocalRead(dmCell,c,cgeom,&cg);
    1167:       DMPlexPointGlobalRead(dm,c,x,&cx);
    1168:       if (vtkLabel) DMLabelGetValue(vtkLabel,c,&vtkVal);
    1169:       if (!vtkVal || !cx) continue;        /* ghost, or not a global cell */
    1170:       for (i=0; i<mod->numCall; i++) {
    1171:         FunctionalLink flink = mod->functionalCall[i];
    1172:         (*flink->func)(mod,time,cg->centroid,cx,ftmp,flink->ctx);
    1173:       }
    1174:       for (i=0; i<fcount; i++) {
    1175:         fmin[i]       = PetscMin(fmin[i],ftmp[i]);
    1176:         fmax[i]       = PetscMax(fmax[i],ftmp[i]);
    1177:         fintegral[i] += cg->volume * ftmp[i];
    1178:       }
    1179:     }
    1180:     VecRestoreArrayRead(cellgeom,&cgeom);
    1181:     VecRestoreArrayRead(X,&x);
    1182:     DMDestroy(&plex);
    1183:     MPI_Allreduce(MPI_IN_PLACE,fmin,fcount,MPIU_REAL,MPIU_MIN,PetscObjectComm((PetscObject)ts));
    1184:     MPI_Allreduce(MPI_IN_PLACE,fmax,fcount,MPIU_REAL,MPIU_MAX,PetscObjectComm((PetscObject)ts));
    1185:     MPI_Allreduce(MPI_IN_PLACE,fintegral,fcount,MPIU_REAL,MPIU_SUM,PetscObjectComm((PetscObject)ts));

    1187:     ftablealloc = fcount * 100;
    1188:     ftableused  = 0;
    1189:     PetscMalloc1(ftablealloc,&ftable);
    1190:     for (i=0; i<mod->numMonitored; i++) {
    1191:       size_t         countused;
    1192:       char           buffer[256],*p;
    1193:       FunctionalLink flink = mod->functionalMonitored[i];
    1194:       PetscInt       id    = flink->offset;
    1195:       if (i % 3) {
    1196:         PetscArraycpy(buffer,"  ",2);
    1197:         p    = buffer + 2;
    1198:       } else if (i) {
    1199:         char newline[] = "\n";
    1200:         PetscMemcpy(buffer,newline,sizeof(newline)-1);
    1201:         p    = buffer + sizeof(newline) - 1;
    1202:       } else {
    1203:         p = buffer;
    1204:       }
    1205:       PetscSNPrintfCount(p,sizeof buffer-(p-buffer),"%12s [%10.7g,%10.7g] int %10.7g",&countused,flink->name,(double)fmin[id],(double)fmax[id],(double)fintegral[id]);
    1206:       countused--;
    1207:       countused += p - buffer;
    1208:       if (countused > ftablealloc-ftableused-1) { /* reallocate */
    1209:         char *ftablenew;
    1210:         ftablealloc = 2*ftablealloc + countused;
    1211:         PetscMalloc(ftablealloc,&ftablenew);
    1212:         PetscArraycpy(ftablenew,ftable,ftableused);
    1213:         PetscFree(ftable);
    1214:         ftable = ftablenew;
    1215:       }
    1216:       PetscArraycpy(ftable+ftableused,buffer,countused);
    1217:       ftableused += countused;
    1218:       ftable[ftableused] = 0;
    1219:     }
    1220:     PetscFree4(fmin,fmax,fintegral,ftmp);

    1222:     PetscPrintf(PetscObjectComm((PetscObject)ts),"% 3D  time %8.4g  |x| %8.4g  %s\n",stepnum,(double)time,(double)xnorm,ftable ? ftable : "");
    1223:     PetscFree(ftable);
    1224:   }
    1225:   if (user->vtkInterval < 1) return 0;
    1226:   if ((stepnum == -1) ^ (stepnum % user->vtkInterval == 0)) {
    1227:     if (stepnum == -1) {        /* Final time is not multiple of normal time interval, write it anyway */
    1228:       TSGetStepNumber(ts,&stepnum);
    1229:     }
    1230:     PetscSNPrintf(filename,sizeof filename,"%s-%03D.vtu",user->outputBasename,stepnum);
    1231:     OutputVTK(dm,filename,&viewer);
    1232:     VecView(X,viewer);
    1233:     PetscViewerDestroy(&viewer);
    1234:   }
    1235:   return 0;
    1236: }

    1238: static PetscErrorCode initializeTS(DM dm, User user, TS *ts)
    1239: {
    1240:   TSCreate(PetscObjectComm((PetscObject)dm), ts);
    1241:   TSSetType(*ts, TSSSP);
    1242:   TSSetDM(*ts, dm);
    1243:   if (user->vtkmon) {
    1244:     TSMonitorSet(*ts,MonitorVTK,user,NULL);
    1245:   }
    1246:   DMTSSetBoundaryLocal(dm, DMPlexTSComputeBoundary, user);
    1247:   DMTSSetRHSFunctionLocal(dm, DMPlexTSComputeRHSFunctionFVM, user);
    1248:   TSSetMaxTime(*ts,2.0);
    1249:   TSSetExactFinalTime(*ts,TS_EXACTFINALTIME_STEPOVER);
    1250:   return 0;
    1251: }

    1253: static PetscErrorCode adaptToleranceFVM(PetscFV fvm, TS ts, Vec sol, VecTagger refineTag, VecTagger coarsenTag, User user, TS *tsNew, Vec *solNew)
    1254: {
    1255:   DM                dm, gradDM, plex, cellDM, adaptedDM = NULL;
    1256:   Vec               cellGeom, faceGeom;
    1257:   PetscBool         isForest, computeGradient;
    1258:   Vec               grad, locGrad, locX, errVec;
    1259:   PetscInt          cStart, cEnd, c, dim, nRefine, nCoarsen;
    1260:   PetscReal         minMaxInd[2] = {PETSC_MAX_REAL, PETSC_MIN_REAL}, minMaxIndGlobal[2], minInd, maxInd, time;
    1261:   PetscScalar       *errArray;
    1262:   const PetscScalar *pointVals;
    1263:   const PetscScalar *pointGrads;
    1264:   const PetscScalar *pointGeom;
    1265:   DMLabel           adaptLabel = NULL;
    1266:   IS                refineIS, coarsenIS;

    1268:   TSGetTime(ts,&time);
    1269:   VecGetDM(sol, &dm);
    1270:   DMGetDimension(dm,&dim);
    1271:   PetscFVGetComputeGradients(fvm,&computeGradient);
    1272:   PetscFVSetComputeGradients(fvm,PETSC_TRUE);
    1273:   DMIsForest(dm, &isForest);
    1274:   DMConvert(dm, DMPLEX, &plex);
    1275:   DMPlexGetDataFVM(plex, fvm, &cellGeom, &faceGeom, &gradDM);
    1276:   DMCreateLocalVector(plex,&locX);
    1277:   DMPlexInsertBoundaryValues(plex, PETSC_TRUE, locX, 0.0, faceGeom, cellGeom, NULL);
    1278:   DMGlobalToLocalBegin(plex, sol, INSERT_VALUES, locX);
    1279:   DMGlobalToLocalEnd  (plex, sol, INSERT_VALUES, locX);
    1280:   DMCreateGlobalVector(gradDM, &grad);
    1281:   DMPlexReconstructGradientsFVM(plex, locX, grad);
    1282:   DMCreateLocalVector(gradDM, &locGrad);
    1283:   DMGlobalToLocalBegin(gradDM, grad, INSERT_VALUES, locGrad);
    1284:   DMGlobalToLocalEnd(gradDM, grad, INSERT_VALUES, locGrad);
    1285:   VecDestroy(&grad);
    1286:   DMPlexGetSimplexOrBoxCells(plex,0,&cStart,&cEnd);
    1287:   VecGetArrayRead(locGrad,&pointGrads);
    1288:   VecGetArrayRead(cellGeom,&pointGeom);
    1289:   VecGetArrayRead(locX,&pointVals);
    1290:   VecGetDM(cellGeom,&cellDM);
    1291:   DMLabelCreate(PETSC_COMM_SELF,"adapt",&adaptLabel);
    1292:   VecCreateMPI(PetscObjectComm((PetscObject)plex),cEnd-cStart,PETSC_DETERMINE,&errVec);
    1293:   VecSetUp(errVec);
    1294:   VecGetArray(errVec,&errArray);
    1295:   for (c = cStart; c < cEnd; c++) {
    1296:     PetscReal             errInd = 0.;
    1297:     PetscScalar           *pointGrad;
    1298:     PetscScalar           *pointVal;
    1299:     PetscFVCellGeom       *cg;

    1301:     DMPlexPointLocalRead(gradDM,c,pointGrads,&pointGrad);
    1302:     DMPlexPointLocalRead(cellDM,c,pointGeom,&cg);
    1303:     DMPlexPointLocalRead(plex,c,pointVals,&pointVal);

    1305:     (user->model->errorIndicator)(dim,cg->volume,user->model->physics->dof,pointVal,pointGrad,&errInd,user->model->errorCtx);
    1306:     errArray[c-cStart] = errInd;
    1307:     minMaxInd[0] = PetscMin(minMaxInd[0],errInd);
    1308:     minMaxInd[1] = PetscMax(minMaxInd[1],errInd);
    1309:   }
    1310:   VecRestoreArray(errVec,&errArray);
    1311:   VecRestoreArrayRead(locX,&pointVals);
    1312:   VecRestoreArrayRead(cellGeom,&pointGeom);
    1313:   VecRestoreArrayRead(locGrad,&pointGrads);
    1314:   VecDestroy(&locGrad);
    1315:   VecDestroy(&locX);
    1316:   DMDestroy(&plex);

    1318:   VecTaggerComputeIS(refineTag,errVec,&refineIS,NULL);
    1319:   VecTaggerComputeIS(coarsenTag,errVec,&coarsenIS,NULL);
    1320:   ISGetSize(refineIS,&nRefine);
    1321:   ISGetSize(coarsenIS,&nCoarsen);
    1322:   if (nRefine) DMLabelSetStratumIS(adaptLabel,DM_ADAPT_REFINE,refineIS);
    1323:   if (nCoarsen) DMLabelSetStratumIS(adaptLabel,DM_ADAPT_COARSEN,coarsenIS);
    1324:   ISDestroy(&coarsenIS);
    1325:   ISDestroy(&refineIS);
    1326:   VecDestroy(&errVec);

    1328:   PetscFVSetComputeGradients(fvm,computeGradient);
    1329:   minMaxInd[1] = -minMaxInd[1];
    1330:   MPI_Allreduce(minMaxInd,minMaxIndGlobal,2,MPIU_REAL,MPI_MIN,PetscObjectComm((PetscObject)dm));
    1331:   minInd = minMaxIndGlobal[0];
    1332:   maxInd = -minMaxIndGlobal[1];
    1333:   PetscInfo(ts, "error indicator range (%E, %E)\n", minInd, maxInd);
    1334:   if (nRefine || nCoarsen) { /* at least one cell is over the refinement threshold */
    1335:     DMAdaptLabel(dm,adaptLabel,&adaptedDM);
    1336:   }
    1337:   DMLabelDestroy(&adaptLabel);
    1338:   if (adaptedDM) {
    1339:     PetscInfo(ts, "Adapted mesh, marking %D cells for refinement, and %D cells for coarsening\n", nRefine, nCoarsen);
    1340:     if (tsNew) initializeTS(adaptedDM, user, tsNew);
    1341:     if (solNew) {
    1342:       DMCreateGlobalVector(adaptedDM, solNew);
    1343:       PetscObjectSetName((PetscObject) *solNew, "solution");
    1344:       DMForestTransferVec(dm, sol, adaptedDM, *solNew, PETSC_TRUE, time);
    1345:     }
    1346:     if (isForest) DMForestSetAdaptivityForest(adaptedDM,NULL); /* clear internal references to the previous dm */
    1347:     DMDestroy(&adaptedDM);
    1348:   } else {
    1349:     if (tsNew)  *tsNew  = NULL;
    1350:     if (solNew) *solNew = NULL;
    1351:   }
    1352:   return 0;
    1353: }

    1355: int main(int argc, char **argv)
    1356: {
    1357:   MPI_Comm          comm;
    1358:   PetscDS           prob;
    1359:   PetscFV           fvm;
    1360:   PetscLimiter      limiter = NULL, noneLimiter = NULL;
    1361:   User              user;
    1362:   Model             mod;
    1363:   Physics           phys;
    1364:   DM                dm, plex;
    1365:   PetscReal         ftime, cfl, dt, minRadius;
    1366:   PetscInt          dim, nsteps;
    1367:   TS                ts;
    1368:   TSConvergedReason reason;
    1369:   Vec               X;
    1370:   PetscViewer       viewer;
    1371:   PetscBool         vtkCellGeom, useAMR;
    1372:   PetscInt          adaptInterval;
    1373:   char              physname[256]  = "advect";
    1374:   VecTagger         refineTag = NULL, coarsenTag = NULL;
    1375:   PetscErrorCode    ierr;

    1377:   PetscInitialize(&argc, &argv, (char*) 0, help);
    1378:   comm = PETSC_COMM_WORLD;

    1380:   PetscNew(&user);
    1381:   PetscNew(&user->model);
    1382:   PetscNew(&user->model->physics);
    1383:   mod           = user->model;
    1384:   phys          = mod->physics;
    1385:   mod->comm     = comm;
    1386:   useAMR        = PETSC_FALSE;
    1387:   adaptInterval = 1;

    1389:   /* Register physical models to be available on the command line */
    1390:   PetscFunctionListAdd(&PhysicsList,"advect"          ,PhysicsCreate_Advect);
    1391:   PetscFunctionListAdd(&PhysicsList,"sw"              ,PhysicsCreate_SW);
    1392:   PetscFunctionListAdd(&PhysicsList,"euler"           ,PhysicsCreate_Euler);

    1394:   PetscOptionsBegin(comm,NULL,"Unstructured Finite Volume Mesh Options","");
    1395:   {
    1396:     cfl  = 0.9 * 4; /* default SSPRKS2 with s=5 stages is stable for CFL number s-1 */
    1397:     PetscOptionsReal("-ufv_cfl","CFL number per step","",cfl,&cfl,NULL);
    1398:     user->vtkInterval = 1;
    1399:     PetscOptionsInt("-ufv_vtk_interval","VTK output interval (0 to disable)","",user->vtkInterval,&user->vtkInterval,NULL);
    1400:     user->vtkmon = PETSC_TRUE;
    1401:     PetscOptionsBool("-ufv_vtk_monitor","Use VTKMonitor routine","",user->vtkmon,&user->vtkmon,NULL);
    1402:     vtkCellGeom = PETSC_FALSE;
    1403:     PetscStrcpy(user->outputBasename, "ex11");
    1404:     PetscOptionsString("-ufv_vtk_basename","VTK output basename","",user->outputBasename,user->outputBasename,sizeof(user->outputBasename),NULL);
    1405:     PetscOptionsBool("-ufv_vtk_cellgeom","Write cell geometry (for debugging)","",vtkCellGeom,&vtkCellGeom,NULL);
    1406:     PetscOptionsBool("-ufv_use_amr","use local adaptive mesh refinement","",useAMR,&useAMR,NULL);
    1407:     PetscOptionsInt("-ufv_adapt_interval","time steps between AMR","",adaptInterval,&adaptInterval,NULL);
    1408:   }
    1409:   PetscOptionsEnd();

    1411:   if (useAMR) {
    1412:     VecTaggerBox refineBox, coarsenBox;

    1414:     refineBox.min  = refineBox.max  = PETSC_MAX_REAL;
    1415:     coarsenBox.min = coarsenBox.max = PETSC_MIN_REAL;

    1417:     VecTaggerCreate(comm,&refineTag);
    1418:     PetscObjectSetOptionsPrefix((PetscObject)refineTag,"refine_");
    1419:     VecTaggerSetType(refineTag,VECTAGGERABSOLUTE);
    1420:     VecTaggerAbsoluteSetBox(refineTag,&refineBox);
    1421:     VecTaggerSetFromOptions(refineTag);
    1422:     VecTaggerSetUp(refineTag);
    1423:     PetscObjectViewFromOptions((PetscObject)refineTag,NULL,"-tag_view");

    1425:     VecTaggerCreate(comm,&coarsenTag);
    1426:     PetscObjectSetOptionsPrefix((PetscObject)coarsenTag,"coarsen_");
    1427:     VecTaggerSetType(coarsenTag,VECTAGGERABSOLUTE);
    1428:     VecTaggerAbsoluteSetBox(coarsenTag,&coarsenBox);
    1429:     VecTaggerSetFromOptions(coarsenTag);
    1430:     VecTaggerSetUp(coarsenTag);
    1431:     PetscObjectViewFromOptions((PetscObject)coarsenTag,NULL,"-tag_view");
    1432:   }

    1434:   PetscOptionsBegin(comm,NULL,"Unstructured Finite Volume Physics Options","");
    1435:   {
    1436:     PetscErrorCode (*physcreate)(Model,Physics,PetscOptionItems*);
    1437:     PetscOptionsFList("-physics","Physics module to solve","",PhysicsList,physname,physname,sizeof physname,NULL);
    1438:     PetscFunctionListFind(PhysicsList,physname,&physcreate);
    1439:     PetscMemzero(phys,sizeof(struct _n_Physics));
    1440:     (*physcreate)(mod,phys,PetscOptionsObject);
    1441:     /* Count number of fields and dofs */
    1442:     for (phys->nfields=0,phys->dof=0; phys->field_desc[phys->nfields].name; phys->nfields++) phys->dof += phys->field_desc[phys->nfields].dof;
    1444:     ModelFunctionalSetFromOptions(mod,PetscOptionsObject);
    1445:   }
    1446:   PetscOptionsEnd();

    1448:   /* Create mesh */
    1449:   {
    1450:     PetscInt i;

    1452:     DMCreate(comm, &dm);
    1453:     DMSetType(dm, DMPLEX);
    1454:     DMSetFromOptions(dm);
    1455:     for (i = 0; i < DIM; i++) { mod->bounds[2*i] = 0.; mod->bounds[2*i+1] = 1.;};
    1456:     dim = DIM;
    1457:     { /* a null name means just do a hex box */
    1458:       PetscInt  cells[3] = {1, 1, 1}, n = 3;
    1459:       PetscBool flg2, skew = PETSC_FALSE;
    1460:       PetscInt nret2 = 2*DIM;
    1461:       PetscOptionsBegin(comm,NULL,"Rectangular mesh options","");
    1462:       PetscOptionsRealArray("-grid_bounds","bounds of the mesh in each direction (i.e., x_min,x_max,y_min,y_max","",mod->bounds,&nret2,&flg2);
    1463:       PetscOptionsBool("-grid_skew_60","Skew grid for 60 degree shock mesh","",skew,&skew,NULL);
    1464:       PetscOptionsIntArray("-dm_plex_box_faces", "Number of faces along each dimension", "", cells, &n, NULL);
    1465:       PetscOptionsEnd();
    1466:       /* TODO Rewrite this with Mark, and remove grid_bounds at that time */
    1467:       if (flg2) {
    1468:         PetscInt dimEmbed, i;
    1469:         PetscInt nCoords;
    1470:         PetscScalar *coords;
    1471:         Vec coordinates;

    1473:         DMGetCoordinatesLocal(dm,&coordinates);
    1474:         DMGetCoordinateDim(dm,&dimEmbed);
    1475:         VecGetLocalSize(coordinates,&nCoords);
    1477:         VecGetArray(coordinates,&coords);
    1478:         for (i = 0; i < nCoords; i += dimEmbed) {
    1479:           PetscInt j;

    1481:           PetscScalar *coord = &coords[i];
    1482:           for (j = 0; j < dimEmbed; j++) {
    1483:             coord[j] = mod->bounds[2 * j] + coord[j] * (mod->bounds[2 * j + 1] - mod->bounds[2 * j]);
    1484:             if (dim==2 && cells[1]==1 && j==0 && skew) {
    1485:               if (cells[0] == 2 && i == 8) {
    1486:                 coord[j] = .57735026918963; /* hack to get 60 deg skewed mesh */
    1487:               } else if (cells[0] == 3) {
    1488:                 if (i==2 || i==10) coord[j] = mod->bounds[1]/4.;
    1489:                 else if (i==4) coord[j] = mod->bounds[1]/2.;
    1490:                 else if (i==12) coord[j] = 1.57735026918963*mod->bounds[1]/2.;
    1491:               }
    1492:             }
    1493:           }
    1494:         }
    1495:         VecRestoreArray(coordinates,&coords);
    1496:         DMSetCoordinatesLocal(dm,coordinates);
    1497:       }
    1498:     }
    1499:   }
    1500:   DMViewFromOptions(dm, NULL, "-orig_dm_view");
    1501:   DMGetDimension(dm, &dim);

    1503:   /* set up BCs, functions, tags */
    1504:   DMCreateLabel(dm, "Face Sets");
    1505:   mod->errorIndicator = ErrorIndicator_Simple;

    1507:   {
    1508:     DM gdm;

    1510:     DMPlexConstructGhostCells(dm, NULL, NULL, &gdm);
    1511:     DMDestroy(&dm);
    1512:     dm   = gdm;
    1513:     DMViewFromOptions(dm, NULL, "-dm_view");
    1514:   }

    1516:   PetscFVCreate(comm, &fvm);
    1517:   PetscFVSetFromOptions(fvm);
    1518:   PetscFVSetNumComponents(fvm, phys->dof);
    1519:   PetscFVSetSpatialDimension(fvm, dim);
    1520:   PetscObjectSetName((PetscObject) fvm,"");
    1521:   {
    1522:     PetscInt f, dof;
    1523:     for (f=0,dof=0; f < phys->nfields; f++) {
    1524:       PetscInt newDof = phys->field_desc[f].dof;

    1526:       if (newDof == 1) {
    1527:         PetscFVSetComponentName(fvm,dof,phys->field_desc[f].name);
    1528:       }
    1529:       else {
    1530:         PetscInt j;

    1532:         for (j = 0; j < newDof; j++) {
    1533:           char     compName[256]  = "Unknown";

    1535:           PetscSNPrintf(compName,sizeof(compName),"%s_%d",phys->field_desc[f].name,j);
    1536:           PetscFVSetComponentName(fvm,dof+j,compName);
    1537:         }
    1538:       }
    1539:       dof += newDof;
    1540:     }
    1541:   }
    1542:   /* FV is now structured with one field having all physics as components */
    1543:   DMAddField(dm, NULL, (PetscObject) fvm);
    1544:   DMCreateDS(dm);
    1545:   DMGetDS(dm, &prob);
    1546:   PetscDSSetRiemannSolver(prob, 0, user->model->physics->riemann);
    1547:   PetscDSSetContext(prob, 0, user->model->physics);
    1548:   (*mod->setupbc)(dm, prob,phys);
    1549:   PetscDSSetFromOptions(prob);
    1550:   {
    1551:     char      convType[256];
    1552:     PetscBool flg;

    1554:     PetscOptionsBegin(comm, "", "Mesh conversion options", "DMPLEX");
    1555:     PetscOptionsFList("-dm_type","Convert DMPlex to another format","ex12",DMList,DMPLEX,convType,256,&flg);
    1556:     PetscOptionsEnd();
    1557:     if (flg) {
    1558:       DM dmConv;

    1560:       DMConvert(dm,convType,&dmConv);
    1561:       if (dmConv) {
    1562:         DMViewFromOptions(dmConv, NULL, "-dm_conv_view");
    1563:         DMDestroy(&dm);
    1564:         dm   = dmConv;
    1565:         DMSetFromOptions(dm);
    1566:       }
    1567:     }
    1568:   }

    1570:   initializeTS(dm, user, &ts);

    1572:   DMCreateGlobalVector(dm, &X);
    1573:   PetscObjectSetName((PetscObject) X, "solution");
    1574:   SetInitialCondition(dm, X, user);
    1575:   if (useAMR) {
    1576:     PetscInt adaptIter;

    1578:     /* use no limiting when reconstructing gradients for adaptivity */
    1579:     PetscFVGetLimiter(fvm, &limiter);
    1580:     PetscObjectReference((PetscObject) limiter);
    1581:     PetscLimiterCreate(PetscObjectComm((PetscObject) fvm), &noneLimiter);
    1582:     PetscLimiterSetType(noneLimiter, PETSCLIMITERNONE);

    1584:     PetscFVSetLimiter(fvm, noneLimiter);
    1585:     for (adaptIter = 0; ; ++adaptIter) {
    1586:       PetscLogDouble bytes;
    1587:       TS             tsNew = NULL;

    1589:       PetscMemoryGetCurrentUsage(&bytes);
    1590:       PetscInfo(ts, "refinement loop %D: memory used %g\n", adaptIter, bytes);
    1591:       DMViewFromOptions(dm, NULL, "-initial_dm_view");
    1592:       VecViewFromOptions(X, NULL, "-initial_vec_view");
    1593: #if 0
    1594:       if (viewInitial) {
    1595:         PetscViewer viewer;
    1596:         char        buf[256];
    1597:         PetscBool   isHDF5, isVTK;

    1599:         PetscViewerCreate(comm,&viewer);
    1600:         PetscViewerSetType(viewer,PETSCVIEWERVTK);
    1601:         PetscViewerSetOptionsPrefix(viewer,"initial_");
    1602:         PetscViewerSetFromOptions(viewer);
    1603:         PetscObjectTypeCompare((PetscObject)viewer,PETSCVIEWERHDF5,&isHDF5);
    1604:         PetscObjectTypeCompare((PetscObject)viewer,PETSCVIEWERVTK,&isVTK);
    1605:         if (isHDF5) {
    1606:           PetscSNPrintf(buf, 256, "ex11-initial-%d.h5", adaptIter);
    1607:         } else if (isVTK) {
    1608:           PetscSNPrintf(buf, 256, "ex11-initial-%d.vtu", adaptIter);
    1609:           PetscViewerPushFormat(viewer,PETSC_VIEWER_VTK_VTU);
    1610:         }
    1611:         PetscViewerFileSetMode(viewer,FILE_MODE_WRITE);
    1612:         PetscViewerFileSetName(viewer,buf);
    1613:         if (isHDF5) {
    1614:           DMView(dm,viewer);
    1615:           PetscViewerFileSetMode(viewer,FILE_MODE_UPDATE);
    1616:         }
    1617:         VecView(X,viewer);
    1618:         PetscViewerDestroy(&viewer);
    1619:       }
    1620: #endif

    1622:       adaptToleranceFVM(fvm, ts, X, refineTag, coarsenTag, user, &tsNew, NULL);
    1623:       if (!tsNew) {
    1624:         break;
    1625:       } else {
    1626:         DMDestroy(&dm);
    1627:         VecDestroy(&X);
    1628:         TSDestroy(&ts);
    1629:         ts   = tsNew;
    1630:         TSGetDM(ts,&dm);
    1631:         PetscObjectReference((PetscObject)dm);
    1632:         DMCreateGlobalVector(dm,&X);
    1633:         PetscObjectSetName((PetscObject) X, "solution");
    1634:         SetInitialCondition(dm, X, user);
    1635:       }
    1636:     }
    1637:     /* restore original limiter */
    1638:     PetscFVSetLimiter(fvm, limiter);
    1639:   }

    1641:   DMConvert(dm, DMPLEX, &plex);
    1642:   if (vtkCellGeom) {
    1643:     DM  dmCell;
    1644:     Vec cellgeom, partition;

    1646:     DMPlexGetGeometryFVM(plex, NULL, &cellgeom, NULL);
    1647:     OutputVTK(dm, "ex11-cellgeom.vtk", &viewer);
    1648:     VecView(cellgeom, viewer);
    1649:     PetscViewerDestroy(&viewer);
    1650:     CreatePartitionVec(dm, &dmCell, &partition);
    1651:     OutputVTK(dmCell, "ex11-partition.vtk", &viewer);
    1652:     VecView(partition, viewer);
    1653:     PetscViewerDestroy(&viewer);
    1654:     VecDestroy(&partition);
    1655:     DMDestroy(&dmCell);
    1656:   }
    1657:   /* collect max maxspeed from all processes -- todo */
    1658:   DMPlexGetGeometryFVM(plex, NULL, NULL, &minRadius);
    1659:   DMDestroy(&plex);
    1660:   MPI_Allreduce(&phys->maxspeed,&mod->maxspeed,1,MPIU_REAL,MPIU_MAX,PetscObjectComm((PetscObject)ts));
    1662:   dt   = cfl * minRadius / mod->maxspeed;
    1663:   TSSetTimeStep(ts,dt);
    1664:   TSSetFromOptions(ts);
    1665:   if (!useAMR) {
    1666:     TSSolve(ts,X);
    1667:     TSGetSolveTime(ts,&ftime);
    1668:     TSGetStepNumber(ts,&nsteps);
    1669:   } else {
    1670:     PetscReal finalTime;
    1671:     PetscInt  adaptIter;
    1672:     TS        tsNew = NULL;
    1673:     Vec       solNew = NULL;

    1675:     TSGetMaxTime(ts,&finalTime);
    1676:     TSSetMaxSteps(ts,adaptInterval);
    1677:     TSSolve(ts,X);
    1678:     TSGetSolveTime(ts,&ftime);
    1679:     TSGetStepNumber(ts,&nsteps);
    1680:     for (adaptIter = 0;ftime < finalTime;adaptIter++) {
    1681:       PetscLogDouble bytes;

    1683:       PetscMemoryGetCurrentUsage(&bytes);
    1684:       PetscInfo(ts, "AMR time step loop %D: memory used %g\n", adaptIter, bytes);
    1685:       PetscFVSetLimiter(fvm,noneLimiter);
    1686:       adaptToleranceFVM(fvm,ts,X,refineTag,coarsenTag,user,&tsNew,&solNew);
    1687:       PetscFVSetLimiter(fvm,limiter);
    1688:       if (tsNew) {
    1689:         PetscInfo(ts, "AMR used\n");
    1690:         DMDestroy(&dm);
    1691:         VecDestroy(&X);
    1692:         TSDestroy(&ts);
    1693:         ts   = tsNew;
    1694:         X    = solNew;
    1695:         TSSetFromOptions(ts);
    1696:         VecGetDM(X,&dm);
    1697:         PetscObjectReference((PetscObject)dm);
    1698:         DMConvert(dm, DMPLEX, &plex);
    1699:         DMPlexGetGeometryFVM(dm, NULL, NULL, &minRadius);
    1700:         DMDestroy(&plex);
    1701:         MPI_Allreduce(&phys->maxspeed,&mod->maxspeed,1,MPIU_REAL,MPIU_MAX,PetscObjectComm((PetscObject)ts));
    1703:         dt   = cfl * minRadius / mod->maxspeed;
    1704:         TSSetStepNumber(ts,nsteps);
    1705:         TSSetTime(ts,ftime);
    1706:         TSSetTimeStep(ts,dt);
    1707:       } else {
    1708:         PetscInfo(ts, "AMR not used\n");
    1709:       }
    1710:       user->monitorStepOffset = nsteps;
    1711:       TSSetMaxSteps(ts,nsteps+adaptInterval);
    1712:       TSSolve(ts,X);
    1713:       TSGetSolveTime(ts,&ftime);
    1714:       TSGetStepNumber(ts,&nsteps);
    1715:     }
    1716:   }
    1717:   TSGetConvergedReason(ts,&reason);
    1718:   PetscPrintf(PETSC_COMM_WORLD,"%s at time %g after %D steps\n",TSConvergedReasons[reason],(double)ftime,nsteps);
    1719:   TSDestroy(&ts);

    1721:   VecTaggerDestroy(&refineTag);
    1722:   VecTaggerDestroy(&coarsenTag);
    1723:   PetscFunctionListDestroy(&PhysicsList);
    1724:   PetscFunctionListDestroy(&PhysicsRiemannList_SW);
    1725:   FunctionalLinkDestroy(&user->model->functionalRegistry);
    1726:   PetscFree(user->model->functionalMonitored);
    1727:   PetscFree(user->model->functionalCall);
    1728:   PetscFree(user->model->physics->data);
    1729:   PetscFree(user->model->physics);
    1730:   PetscFree(user->model);
    1731:   PetscFree(user);
    1732:   VecDestroy(&X);
    1733:   PetscLimiterDestroy(&limiter);
    1734:   PetscLimiterDestroy(&noneLimiter);
    1735:   PetscFVDestroy(&fvm);
    1736:   DMDestroy(&dm);
    1737:   PetscFinalize();
    1738:   return 0;
    1739: }

    1741: /* Godunov fluxs */
    1742: PetscScalar cvmgp_(PetscScalar *a, PetscScalar *b, PetscScalar *test)
    1743: {
    1744:     /* System generated locals */
    1745:     PetscScalar ret_val;

    1747:     if (PetscRealPart(*test) > 0.) {
    1748:         goto L10;
    1749:     }
    1750:     ret_val = *b;
    1751:     return ret_val;
    1752: L10:
    1753:     ret_val = *a;
    1754:     return ret_val;
    1755: } /* cvmgp_ */

    1757: PetscScalar cvmgm_(PetscScalar *a, PetscScalar *b, PetscScalar *test)
    1758: {
    1759:     /* System generated locals */
    1760:     PetscScalar ret_val;

    1762:     if (PetscRealPart(*test) < 0.) {
    1763:         goto L10;
    1764:     }
    1765:     ret_val = *b;
    1766:     return ret_val;
    1767: L10:
    1768:     ret_val = *a;
    1769:     return ret_val;
    1770: } /* cvmgm_ */

    1772: int riem1mdt( PetscScalar *gaml, PetscScalar *gamr, PetscScalar *rl, PetscScalar *pl,
    1773:               PetscScalar *uxl, PetscScalar *rr, PetscScalar *pr,
    1774:               PetscScalar *uxr, PetscScalar *rstarl, PetscScalar *rstarr, PetscScalar *
    1775:               pstar, PetscScalar *ustar)
    1776: {
    1777:     /* Initialized data */

    1779:     static PetscScalar smallp = 1e-8;

    1781:     /* System generated locals */
    1782:     int i__1;
    1783:     PetscScalar d__1, d__2;

    1785:     /* Local variables */
    1786:     static int i0;
    1787:     static PetscScalar cl, cr, wl, zl, wr, zr, pst, durl, skpr1, skpr2;
    1788:     static int iwave;
    1789:     static PetscScalar gascl4, gascr4, cstarl, dpstar, cstarr;
    1790:     /* static PetscScalar csqrl, csqrr, gascl1, gascl2, gascl3, gascr1, gascr2, gascr3; */
    1791:     static int iterno;
    1792:     static PetscScalar ustarl, ustarr, rarepr1, rarepr2;

    1794:     /* gascl1 = *gaml - 1.; */
    1795:     /* gascl2 = (*gaml + 1.) * .5; */
    1796:     /* gascl3 = gascl2 / *gaml; */
    1797:     gascl4 = 1. / (*gaml - 1.);

    1799:     /* gascr1 = *gamr - 1.; */
    1800:     /* gascr2 = (*gamr + 1.) * .5; */
    1801:     /* gascr3 = gascr2 / *gamr; */
    1802:     gascr4 = 1. / (*gamr - 1.);
    1803:     iterno = 10;
    1804: /*        find pstar: */
    1805:     cl = PetscSqrtScalar(*gaml * *pl / *rl);
    1806:     cr = PetscSqrtScalar(*gamr * *pr / *rr);
    1807:     wl = *rl * cl;
    1808:     wr = *rr * cr;
    1809:     /* csqrl = wl * wl; */
    1810:     /* csqrr = wr * wr; */
    1811:     *pstar = (wl * *pr + wr * *pl) / (wl + wr);
    1812:     *pstar = PetscMax(PetscRealPart(*pstar),PetscRealPart(smallp));
    1813:     pst = *pl / *pr;
    1814:     skpr1 = cr * (pst - 1.) * PetscSqrtScalar(2. / (*gamr * (*gamr - 1. + (*gamr + 1.) * pst)));
    1815:     d__1 = (*gamr - 1.) / (*gamr * 2.);
    1816:     rarepr2 = gascr4 * 2. * cr * (1. - PetscPowScalar(pst, d__1));
    1817:     pst = *pr / *pl;
    1818:     skpr2 = cl * (pst - 1.) * PetscSqrtScalar(2. / (*gaml * (*gaml - 1. + (*gaml + 1.) * pst)));
    1819:     d__1 = (*gaml - 1.) / (*gaml * 2.);
    1820:     rarepr1 = gascl4 * 2. * cl * (1. - PetscPowScalar(pst, d__1));
    1821:     durl = *uxr - *uxl;
    1822:     if (PetscRealPart(*pr) < PetscRealPart(*pl)) {
    1823:         if (PetscRealPart(durl) >= PetscRealPart(rarepr1)) {
    1824:             iwave = 100;
    1825:         } else if (PetscRealPart(durl) <= PetscRealPart(-skpr1)) {
    1826:             iwave = 300;
    1827:         } else {
    1828:             iwave = 400;
    1829:         }
    1830:     } else {
    1831:         if (PetscRealPart(durl) >= PetscRealPart(rarepr2)) {
    1832:             iwave = 100;
    1833:         } else if (PetscRealPart(durl) <= PetscRealPart(-skpr2)) {
    1834:             iwave = 300;
    1835:         } else {
    1836:             iwave = 200;
    1837:         }
    1838:     }
    1839:     if (iwave == 100) {
    1840: /*     1-wave: rarefaction wave, 3-wave: rarefaction wave */
    1841: /*     case (100) */
    1842:         i__1 = iterno;
    1843:         for (i0 = 1; i0 <= i__1; ++i0) {
    1844:             d__1 = *pstar / *pl;
    1845:             d__2 = 1. / *gaml;
    1846:             *rstarl = *rl * PetscPowScalar(d__1, d__2);
    1847:             cstarl = PetscSqrtScalar(*gaml * *pstar / *rstarl);
    1848:             ustarl = *uxl - gascl4 * 2. * (cstarl - cl);
    1849:             zl = *rstarl * cstarl;
    1850:             d__1 = *pstar / *pr;
    1851:             d__2 = 1. / *gamr;
    1852:             *rstarr = *rr * PetscPowScalar(d__1, d__2);
    1853:             cstarr = PetscSqrtScalar(*gamr * *pstar / *rstarr);
    1854:             ustarr = *uxr + gascr4 * 2. * (cstarr - cr);
    1855:             zr = *rstarr * cstarr;
    1856:             dpstar = zl * zr * (ustarr - ustarl) / (zl + zr);
    1857:             *pstar -= dpstar;
    1858:             *pstar = PetscMax(PetscRealPart(*pstar),PetscRealPart(smallp));
    1859:             if (PetscAbsScalar(dpstar) / PetscRealPart(*pstar) <= 1e-8) {
    1860: #if 0
    1861:         break;
    1862: #endif
    1863:             }
    1864:         }
    1865: /*     1-wave: shock wave, 3-wave: rarefaction wave */
    1866:     } else if (iwave == 200) {
    1867: /*     case (200) */
    1868:         i__1 = iterno;
    1869:         for (i0 = 1; i0 <= i__1; ++i0) {
    1870:             pst = *pstar / *pl;
    1871:             ustarl = *uxl - (pst - 1.) * cl * PetscSqrtScalar(2. / (*gaml * (*gaml - 1. + (*gaml + 1.) * pst)));
    1872:             zl = *pl / cl * PetscSqrtScalar(*gaml * 2. * (*gaml - 1. + (*gaml + 1.) * pst)) * (*gaml - 1. + (*gaml + 1.) * pst) / (*gaml * 3. - 1. + (*gaml + 1.) * pst);
    1873:             d__1 = *pstar / *pr;
    1874:             d__2 = 1. / *gamr;
    1875:             *rstarr = *rr * PetscPowScalar(d__1, d__2);
    1876:             cstarr = PetscSqrtScalar(*gamr * *pstar / *rstarr);
    1877:             zr = *rstarr * cstarr;
    1878:             ustarr = *uxr + gascr4 * 2. * (cstarr - cr);
    1879:             dpstar = zl * zr * (ustarr - ustarl) / (zl + zr);
    1880:             *pstar -= dpstar;
    1881:             *pstar = PetscMax(PetscRealPart(*pstar),PetscRealPart(smallp));
    1882:             if (PetscAbsScalar(dpstar) / PetscRealPart(*pstar) <= 1e-8) {
    1883: #if 0
    1884:         break;
    1885: #endif
    1886:             }
    1887:         }
    1888: /*     1-wave: shock wave, 3-wave: shock */
    1889:     } else if (iwave == 300) {
    1890: /*     case (300) */
    1891:         i__1 = iterno;
    1892:         for (i0 = 1; i0 <= i__1; ++i0) {
    1893:             pst = *pstar / *pl;
    1894:             ustarl = *uxl - (pst - 1.) * cl * PetscSqrtScalar(2. / (*gaml * (*gaml - 1. + (*gaml + 1.) * pst)));
    1895:             zl = *pl / cl * PetscSqrtScalar(*gaml * 2. * (*gaml - 1. + (*gaml + 1.) * pst)) * (*gaml - 1. + (*gaml + 1.) * pst) / (*gaml * 3. - 1. + (*gaml + 1.) * pst);
    1896:             pst = *pstar / *pr;
    1897:             ustarr = *uxr + (pst - 1.) * cr * PetscSqrtScalar(2. / (*gamr * (*gamr - 1. + (*gamr + 1.) * pst)));
    1898:             zr = *pr / cr * PetscSqrtScalar(*gamr * 2. * (*gamr - 1. + (*gamr + 1.) * pst)) * (*gamr - 1. + (*gamr + 1.) * pst) / (*gamr * 3. - 1. + (*gamr + 1.) * pst);
    1899:             dpstar = zl * zr * (ustarr - ustarl) / (zl + zr);
    1900:             *pstar -= dpstar;
    1901:             *pstar = PetscMax(PetscRealPart(*pstar),PetscRealPart(smallp));
    1902:             if (PetscAbsScalar(dpstar) / PetscRealPart(*pstar) <= 1e-8) {
    1903: #if 0
    1904:         break;
    1905: #endif
    1906:             }
    1907:         }
    1908: /*     1-wave: rarefaction wave, 3-wave: shock */
    1909:     } else if (iwave == 400) {
    1910: /*     case (400) */
    1911:         i__1 = iterno;
    1912:         for (i0 = 1; i0 <= i__1; ++i0) {
    1913:             d__1 = *pstar / *pl;
    1914:             d__2 = 1. / *gaml;
    1915:             *rstarl = *rl * PetscPowScalar(d__1, d__2);
    1916:             cstarl = PetscSqrtScalar(*gaml * *pstar / *rstarl);
    1917:             ustarl = *uxl - gascl4 * 2. * (cstarl - cl);
    1918:             zl = *rstarl * cstarl;
    1919:             pst = *pstar / *pr;
    1920:             ustarr = *uxr + (pst - 1.) * cr * PetscSqrtScalar(2. / (*gamr * (*gamr - 1. + (*gamr + 1.) * pst)));
    1921:             zr = *pr / cr * PetscSqrtScalar(*gamr * 2. * (*gamr - 1. + (*gamr + 1.) * pst)) * (*gamr - 1. + (*gamr + 1.) * pst) / (*gamr * 3. - 1. + (*gamr + 1.) * pst);
    1922:             dpstar = zl * zr * (ustarr - ustarl) / (zl + zr);
    1923:             *pstar -= dpstar;
    1924:             *pstar = PetscMax(PetscRealPart(*pstar),PetscRealPart(smallp));
    1925:             if (PetscAbsScalar(dpstar) / PetscRealPart(*pstar) <= 1e-8) {
    1926: #if 0
    1927:               break;
    1928: #endif
    1929:             }
    1930:         }
    1931:     }

    1933:     *ustar = (zl * ustarr + zr * ustarl) / (zl + zr);
    1934:     if (PetscRealPart(*pstar) > PetscRealPart(*pl)) {
    1935:         pst = *pstar / *pl;
    1936:         *rstarl = ((*gaml + 1.) * pst + *gaml - 1.) / ((*gaml - 1.) * pst + *
    1937:                 gaml + 1.) * *rl;
    1938:     }
    1939:     if (PetscRealPart(*pstar) > PetscRealPart(*pr)) {
    1940:         pst = *pstar / *pr;
    1941:         *rstarr = ((*gamr + 1.) * pst + *gamr - 1.) / ((*gamr - 1.) * pst + *
    1942:                 gamr + 1.) * *rr;
    1943:     }
    1944:     return iwave;
    1945: }

    1947: PetscScalar sign(PetscScalar x)
    1948: {
    1949:     if (PetscRealPart(x) > 0) return 1.0;
    1950:     if (PetscRealPart(x) < 0) return -1.0;
    1951:     return 0.0;
    1952: }
    1953: /*        Riemann Solver */
    1954: /* -------------------------------------------------------------------- */
    1955: int riemannsolver(PetscScalar *xcen, PetscScalar *xp,
    1956:                    PetscScalar *dtt, PetscScalar *rl, PetscScalar *uxl, PetscScalar *pl,
    1957:                    PetscScalar *utl, PetscScalar *ubl, PetscScalar *gaml, PetscScalar *rho1l,
    1958:                    PetscScalar *rr, PetscScalar *uxr, PetscScalar *pr, PetscScalar *utr,
    1959:                    PetscScalar *ubr, PetscScalar *gamr, PetscScalar *rho1r, PetscScalar *rx,
    1960:                    PetscScalar *uxm, PetscScalar *px, PetscScalar *utx, PetscScalar *ubx,
    1961:                    PetscScalar *gam, PetscScalar *rho1)
    1962: {
    1963:     /* System generated locals */
    1964:     PetscScalar d__1, d__2;

    1966:     /* Local variables */
    1967:     static PetscScalar s, c0, p0, r0, u0, w0, x0, x2, ri, cx, sgn0, wsp0, gasc1, gasc2, gasc3, gasc4;
    1968:     static PetscScalar cstar, pstar, rstar, ustar, xstar, wspst, ushock, streng, rstarl, rstarr, rstars;
    1969:     int iwave;

    1971:     if (*rl == *rr && *pr == *pl && *uxl == *uxr && *gaml == *gamr) {
    1972:         *rx = *rl;
    1973:         *px = *pl;
    1974:         *uxm = *uxl;
    1975:         *gam = *gaml;
    1976:         x2 = *xcen + *uxm * *dtt;

    1978:         if (PetscRealPart(*xp) >= PetscRealPart(x2)) {
    1979:             *utx = *utr;
    1980:             *ubx = *ubr;
    1981:             *rho1 = *rho1r;
    1982:         } else {
    1983:             *utx = *utl;
    1984:             *ubx = *ubl;
    1985:             *rho1 = *rho1l;
    1986:         }
    1987:         return 0;
    1988:     }
    1989:     iwave = riem1mdt(gaml, gamr, rl, pl, uxl, rr, pr, uxr, &rstarl, &rstarr, &pstar, &ustar);

    1991:     x2 = *xcen + ustar * *dtt;
    1992:     d__1 = *xp - x2;
    1993:     sgn0 = sign(d__1);
    1994: /*            x is in 3-wave if sgn0 = 1 */
    1995: /*            x is in 1-wave if sgn0 = -1 */
    1996:     r0 = cvmgm_(rl, rr, &sgn0);
    1997:     p0 = cvmgm_(pl, pr, &sgn0);
    1998:     u0 = cvmgm_(uxl, uxr, &sgn0);
    1999:     *gam = cvmgm_(gaml, gamr, &sgn0);
    2000:     gasc1 = *gam - 1.;
    2001:     gasc2 = (*gam + 1.) * .5;
    2002:     gasc3 = gasc2 / *gam;
    2003:     gasc4 = 1. / (*gam - 1.);
    2004:     c0 = PetscSqrtScalar(*gam * p0 / r0);
    2005:     streng = pstar - p0;
    2006:     w0 = *gam * r0 * p0 * (gasc3 * streng / p0 + 1.);
    2007:     rstars = r0 / (1. - r0 * streng / w0);
    2008:     d__1 = p0 / pstar;
    2009:     d__2 = -1. / *gam;
    2010:     rstarr = r0 * PetscPowScalar(d__1, d__2);
    2011:     rstar = cvmgm_(&rstarr, &rstars, &streng);
    2012:     w0 = PetscSqrtScalar(w0);
    2013:     cstar = PetscSqrtScalar(*gam * pstar / rstar);
    2014:     wsp0 = u0 + sgn0 * c0;
    2015:     wspst = ustar + sgn0 * cstar;
    2016:     ushock = ustar + sgn0 * w0 / rstar;
    2017:     wspst = cvmgp_(&ushock, &wspst, &streng);
    2018:     wsp0 = cvmgp_(&ushock, &wsp0, &streng);
    2019:     x0 = *xcen + wsp0 * *dtt;
    2020:     xstar = *xcen + wspst * *dtt;
    2021: /*           using gas formula to evaluate rarefaction wave */
    2022: /*            ri : reiman invariant */
    2023:     ri = u0 - sgn0 * 2. * gasc4 * c0;
    2024:     cx = sgn0 * .5 * gasc1 / gasc2 * ((*xp - *xcen) / *dtt - ri);
    2025:     *uxm = ri + sgn0 * 2. * gasc4 * cx;
    2026:     s = p0 / PetscPowScalar(r0, *gam);
    2027:     d__1 = cx * cx / (*gam * s);
    2028:     *rx = PetscPowScalar(d__1, gasc4);
    2029:     *px = cx * cx * *rx / *gam;
    2030:     d__1 = sgn0 * (x0 - *xp);
    2031:     *rx = cvmgp_(rx, &r0, &d__1);
    2032:     d__1 = sgn0 * (x0 - *xp);
    2033:     *px = cvmgp_(px, &p0, &d__1);
    2034:     d__1 = sgn0 * (x0 - *xp);
    2035:     *uxm = cvmgp_(uxm, &u0, &d__1);
    2036:     d__1 = sgn0 * (xstar - *xp);
    2037:     *rx = cvmgm_(rx, &rstar, &d__1);
    2038:     d__1 = sgn0 * (xstar - *xp);
    2039:     *px = cvmgm_(px, &pstar, &d__1);
    2040:     d__1 = sgn0 * (xstar - *xp);
    2041:     *uxm = cvmgm_(uxm, &ustar, &d__1);
    2042:     if (PetscRealPart(*xp) >= PetscRealPart(x2)) {
    2043:         *utx = *utr;
    2044:         *ubx = *ubr;
    2045:         *rho1 = *rho1r;
    2046:     } else {
    2047:         *utx = *utl;
    2048:         *ubx = *ubl;
    2049:         *rho1 = *rho1l;
    2050:     }
    2051:     return iwave;
    2052: }
    2053: int godunovflux( const PetscScalar *ul, const PetscScalar *ur,
    2054:                  PetscScalar *flux, const PetscReal *nn, const int *ndim,
    2055:                  const PetscReal *gamma)
    2056: {
    2057:     /* System generated locals */
    2058:   int i__1,iwave;
    2059:     PetscScalar d__1, d__2, d__3;

    2061:     /* Local variables */
    2062:     static int k;
    2063:     static PetscScalar bn[3], fn, ft, tg[3], pl, rl, pm, pr, rr, xp, ubl, ubm,
    2064:             ubr, dtt, unm, tmp, utl, utm, uxl, utr, uxr, gaml, gamm, gamr,
    2065:             xcen, rhom, rho1l, rho1m, rho1r;

    2067:     /* Function Body */
    2068:     xcen = 0.;
    2069:     xp = 0.;
    2070:     i__1 = *ndim;
    2071:     for (k = 1; k <= i__1; ++k) {
    2072:         tg[k - 1] = 0.;
    2073:         bn[k - 1] = 0.;
    2074:     }
    2075:     dtt = 1.;
    2076:     if (*ndim == 3) {
    2077:         if (nn[0] == 0. && nn[1] == 0.) {
    2078:             tg[0] = 1.;
    2079:         } else {
    2080:             tg[0] = -nn[1];
    2081:             tg[1] = nn[0];
    2082:         }
    2083: /*           tmp=dsqrt(tg(1)**2+tg(2)**2) */
    2084: /*           tg=tg/tmp */
    2085:         bn[0] = -nn[2] * tg[1];
    2086:         bn[1] = nn[2] * tg[0];
    2087:         bn[2] = nn[0] * tg[1] - nn[1] * tg[0];
    2088: /* Computing 2nd power */
    2089:         d__1 = bn[0];
    2090: /* Computing 2nd power */
    2091:         d__2 = bn[1];
    2092: /* Computing 2nd power */
    2093:         d__3 = bn[2];
    2094:         tmp = PetscSqrtScalar(d__1 * d__1 + d__2 * d__2 + d__3 * d__3);
    2095:         i__1 = *ndim;
    2096:         for (k = 1; k <= i__1; ++k) {
    2097:             bn[k - 1] /= tmp;
    2098:         }
    2099:     } else if (*ndim == 2) {
    2100:         tg[0] = -nn[1];
    2101:         tg[1] = nn[0];
    2102: /*           tmp=dsqrt(tg(1)**2+tg(2)**2) */
    2103: /*           tg=tg/tmp */
    2104:         bn[0] = 0.;
    2105:         bn[1] = 0.;
    2106:         bn[2] = 1.;
    2107:     }
    2108:     rl = ul[0];
    2109:     rr = ur[0];
    2110:     uxl = 0.;
    2111:     uxr = 0.;
    2112:     utl = 0.;
    2113:     utr = 0.;
    2114:     ubl = 0.;
    2115:     ubr = 0.;
    2116:     i__1 = *ndim;
    2117:     for (k = 1; k <= i__1; ++k) {
    2118:         uxl += ul[k] * nn[k-1];
    2119:         uxr += ur[k] * nn[k-1];
    2120:         utl += ul[k] * tg[k - 1];
    2121:         utr += ur[k] * tg[k - 1];
    2122:         ubl += ul[k] * bn[k - 1];
    2123:         ubr += ur[k] * bn[k - 1];
    2124:     }
    2125:     uxl /= rl;
    2126:     uxr /= rr;
    2127:     utl /= rl;
    2128:     utr /= rr;
    2129:     ubl /= rl;
    2130:     ubr /= rr;

    2132:     gaml = *gamma;
    2133:     gamr = *gamma;
    2134: /* Computing 2nd power */
    2135:     d__1 = uxl;
    2136: /* Computing 2nd power */
    2137:     d__2 = utl;
    2138: /* Computing 2nd power */
    2139:     d__3 = ubl;
    2140:     pl = (*gamma - 1.) * (ul[*ndim + 1] - rl * .5 * (d__1 * d__1 + d__2 * d__2 + d__3 * d__3));
    2141: /* Computing 2nd power */
    2142:     d__1 = uxr;
    2143: /* Computing 2nd power */
    2144:     d__2 = utr;
    2145: /* Computing 2nd power */
    2146:     d__3 = ubr;
    2147:     pr = (*gamma - 1.) * (ur[*ndim + 1] - rr * .5 * (d__1 * d__1 + d__2 * d__2 + d__3 * d__3));
    2148:     rho1l = rl;
    2149:     rho1r = rr;

    2151:     iwave = riemannsolver(&xcen, &xp, &dtt, &rl, &uxl, &pl, &utl, &ubl, &gaml, &
    2152:                           rho1l, &rr, &uxr, &pr, &utr, &ubr, &gamr, &rho1r, &rhom, &unm, &
    2153:                           pm, &utm, &ubm, &gamm, &rho1m);

    2155:     flux[0] = rhom * unm;
    2156:     fn = rhom * unm * unm + pm;
    2157:     ft = rhom * unm * utm;
    2158: /*           flux(2)=fn*nn(1)+ft*nn(2) */
    2159: /*           flux(3)=fn*tg(1)+ft*tg(2) */
    2160:     flux[1] = fn * nn[0] + ft * tg[0];
    2161:     flux[2] = fn * nn[1] + ft * tg[1];
    2162: /*           flux(2)=rhom*unm*(unm)+pm */
    2163: /*           flux(3)=rhom*(unm)*utm */
    2164:     if (*ndim == 3) {
    2165:         flux[3] = rhom * unm * ubm;
    2166:     }
    2167:     flux[*ndim + 1] = (rhom * .5 * (unm * unm + utm * utm + ubm * ubm) + gamm / (gamm - 1.) * pm) * unm;
    2168:     return iwave;
    2169: } /* godunovflux_ */

    2171: /* Subroutine to set up the initial conditions for the */
    2172: /* Shock Interface interaction or linear wave (Ravi Samtaney,Mark Adams). */
    2173: /* ----------------------------------------------------------------------- */
    2174: int projecteqstate(PetscReal wc[], const PetscReal ueq[], PetscReal lv[][3])
    2175: {
    2176:   int j,k;
    2177: /*      Wc=matmul(lv,Ueq) 3 vars */
    2178:   for (k = 0; k < 3; ++k) {
    2179:     wc[k] = 0.;
    2180:     for (j = 0; j < 3; ++j) {
    2181:       wc[k] += lv[k][j]*ueq[j];
    2182:     }
    2183:   }
    2184:   return 0;
    2185: }
    2186: /* ----------------------------------------------------------------------- */
    2187: int projecttoprim(PetscReal v[], const PetscReal wc[], PetscReal rv[][3])
    2188: {
    2189:   int k,j;
    2190:   /*      V=matmul(rv,WC) 3 vars */
    2191:   for (k = 0; k < 3; ++k) {
    2192:     v[k] = 0.;
    2193:     for (j = 0; j < 3; ++j) {
    2194:       v[k] += rv[k][j]*wc[j];
    2195:     }
    2196:   }
    2197:   return 0;
    2198: }
    2199: /* ---------------------------------------------------------------------- */
    2200: int eigenvectors(PetscReal rv[][3], PetscReal lv[][3], const PetscReal ueq[], PetscReal gamma)
    2201: {
    2202:   int j,k;
    2203:   PetscReal rho,csnd,p0;
    2204:   /* PetscScalar u; */

    2206:   for (k = 0; k < 3; ++k) for (j = 0; j < 3; ++j) { lv[k][j] = 0.; rv[k][j] = 0.; }
    2207:   rho = ueq[0];
    2208:   /* u = ueq[1]; */
    2209:   p0 = ueq[2];
    2210:   csnd = PetscSqrtReal(gamma * p0 / rho);
    2211:   lv[0][1] = rho * .5;
    2212:   lv[0][2] = -.5 / csnd;
    2213:   lv[1][0] = csnd;
    2214:   lv[1][2] = -1. / csnd;
    2215:   lv[2][1] = rho * .5;
    2216:   lv[2][2] = .5 / csnd;
    2217:   rv[0][0] = -1. / csnd;
    2218:   rv[1][0] = 1. / rho;
    2219:   rv[2][0] = -csnd;
    2220:   rv[0][1] = 1. / csnd;
    2221:   rv[0][2] = 1. / csnd;
    2222:   rv[1][2] = 1. / rho;
    2223:   rv[2][2] = csnd;
    2224:   return 0;
    2225: }

    2227: int initLinearWave(EulerNode *ux, const PetscReal gamma, const PetscReal coord[], const PetscReal Lx)
    2228: {
    2229:   PetscReal p0,u0,wcp[3],wc[3];
    2230:   PetscReal lv[3][3];
    2231:   PetscReal vp[3];
    2232:   PetscReal rv[3][3];
    2233:   PetscReal eps, ueq[3], rho0, twopi;

    2235:   /* Function Body */
    2236:   twopi = 2.*PETSC_PI;
    2237:   eps = 1e-4; /* perturbation */
    2238:   rho0 = 1e3;   /* density of water */
    2239:   p0 = 101325.; /* init pressure of 1 atm (?) */
    2240:   u0 = 0.;
    2241:   ueq[0] = rho0;
    2242:   ueq[1] = u0;
    2243:   ueq[2] = p0;
    2244:   /* Project initial state to characteristic variables */
    2245:   eigenvectors(rv, lv, ueq, gamma);
    2246:   projecteqstate(wc, ueq, lv);
    2247:   wcp[0] = wc[0];
    2248:   wcp[1] = wc[1];
    2249:   wcp[2] = wc[2] + eps * PetscCosReal(coord[0] * 2. * twopi / Lx);
    2250:   projecttoprim(vp, wcp, rv);
    2251:   ux->r = vp[0]; /* density */
    2252:   ux->ru[0] = vp[0] * vp[1]; /* x momentum */
    2253:   ux->ru[1] = 0.;
    2254: #if defined DIM > 2
    2255:   if (dim>2) ux->ru[2] = 0.;
    2256: #endif
    2257:   /* E = rho * e + rho * v^2/2 = p/(gam-1) + rho*v^2/2 */
    2258:   ux->E = vp[2]/(gamma - 1.) + 0.5*vp[0]*vp[1]*vp[1];
    2259:   return 0;
    2260: }

    2262: /*TEST

    2264:   testset:
    2265:     args: -dm_plex_adj_cone -dm_plex_adj_closure 0

    2267:     test:
    2268:       suffix: adv_2d_tri_0
    2269:       requires: triangle
    2270:       TODO: how did this ever get in main when there is no support for this
    2271:       args: -ufv_vtk_interval 0 -simplex -dm_refine 3 -dm_plex_faces 1,1 -dm_plex_separate_marker -bc_inflow 1,2,4 -bc_outflow 3

    2273:     test:
    2274:       suffix: adv_2d_tri_1
    2275:       requires: triangle
    2276:       TODO: how did this ever get in main when there is no support for this
    2277:       args: -ufv_vtk_interval 0 -simplex -dm_refine 5 -dm_plex_faces 1,1 -dm_plex_separate_marker -grid_bounds -0.5,0.5,-0.5,0.5 -bc_inflow 1,2,4 -bc_outflow 3 -advect_sol_type bump -advect_bump_center 0.25,0 -advect_bump_radius 0.1

    2279:     test:
    2280:       suffix: tut_1
    2281:       requires: exodusii
    2282:       nsize: 1
    2283:       args: -dm_plex_filename ${wPETSC_DIR}/share/petsc/datafiles/meshes/sevenside.exo

    2285:     test:
    2286:       suffix: tut_2
    2287:       requires: exodusii
    2288:       nsize: 1
    2289:       args: -dm_plex_filename ${wPETSC_DIR}/share/petsc/datafiles/meshes/sevenside.exo -ts_type rosw

    2291:     test:
    2292:       suffix: tut_3
    2293:       requires: exodusii
    2294:       nsize: 4
    2295:       args: -dm_distribute_overlap 1 -dm_plex_filename ${wPETSC_DIR}/share/petsc/datafiles/meshes/annulus-20.exo -monitor Error -advect_sol_type bump -petscfv_type leastsquares -petsclimiter_type sin

    2297:     test:
    2298:       suffix: tut_4
    2299:       requires: exodusii
    2300:       nsize: 4
    2301:       args: -dm_distribute_overlap 1 -dm_plex_filename ${wPETSC_DIR}/share/petsc/datafiles/meshes/annulus-20.exo -physics sw -monitor Height,Energy -petscfv_type leastsquares -petsclimiter_type minmod

    2303:   testset:
    2304:     args: -dm_plex_adj_cone -dm_plex_adj_closure 0 -dm_plex_simplex 0 -dm_plex_box_faces 1,1,1

    2306:     # 2D Advection 0-10
    2307:     test:
    2308:       suffix: 0
    2309:       requires: exodusii
    2310:       args: -ufv_vtk_interval 0 -dm_plex_filename ${wPETSC_DIR}/share/petsc/datafiles/meshes/sevenside.exo

    2312:     test:
    2313:       suffix: 1
    2314:       requires: exodusii
    2315:       args: -ufv_vtk_interval 0 -dm_plex_filename ${wPETSC_DIR}/share/petsc/datafiles/meshes/sevenside-quad-15.exo

    2317:     test:
    2318:       suffix: 2
    2319:       requires: exodusii
    2320:       nsize: 2
    2321:       args: -dm_distribute_overlap 1 -ufv_vtk_interval 0 -dm_plex_filename ${wPETSC_DIR}/share/petsc/datafiles/meshes/sevenside.exo

    2323:     test:
    2324:       suffix: 3
    2325:       requires: exodusii
    2326:       nsize: 2
    2327:       args: -dm_distribute_overlap 1 -ufv_vtk_interval 0 -dm_plex_filename ${wPETSC_DIR}/share/petsc/datafiles/meshes/sevenside-quad-15.exo

    2329:     test:
    2330:       suffix: 4
    2331:       requires: exodusii
    2332:       nsize: 8
    2333:       args: -dm_distribute_overlap 1 -ufv_vtk_interval 0 -dm_plex_filename ${wPETSC_DIR}/share/petsc/datafiles/meshes/sevenside-quad.exo

    2335:     test:
    2336:       suffix: 5
    2337:       requires: exodusii
    2338:       args: -ufv_vtk_interval 0 -dm_plex_filename ${wPETSC_DIR}/share/petsc/datafiles/meshes/sevenside.exo -ts_type rosw -ts_adapt_reject_safety 1

    2340:     test:
    2341:       suffix: 7
    2342:       requires: exodusii
    2343:       args: -ufv_vtk_interval 0 -dm_plex_filename ${wPETSC_DIR}/share/petsc/datafiles/meshes/sevenside-quad-15.exo -dm_refine 1

    2345:     test:
    2346:       suffix: 8
    2347:       requires: exodusii
    2348:       nsize: 2
    2349:       args: -dm_distribute_overlap 1 -ufv_vtk_interval 0 -dm_plex_filename ${wPETSC_DIR}/share/petsc/datafiles/meshes/sevenside-quad-15.exo -dm_refine 1

    2351:     test:
    2352:       suffix: 9
    2353:       requires: exodusii
    2354:       nsize: 8
    2355:       args: -dm_distribute_overlap 1 -ufv_vtk_interval 0 -dm_plex_filename ${wPETSC_DIR}/share/petsc/datafiles/meshes/sevenside-quad-15.exo -dm_refine 1

    2357:     test:
    2358:       suffix: 10
    2359:       requires: exodusii
    2360:       args: -ufv_vtk_interval 0 -dm_plex_filename ${wPETSC_DIR}/share/petsc/datafiles/meshes/sevenside-quad.exo

    2362:     # 2D Shallow water
    2363:     test:
    2364:       suffix: sw_0
    2365:       requires: exodusii
    2366:       args: -ufv_vtk_interval 0 -dm_plex_filename ${wPETSC_DIR}/share/petsc/datafiles/meshes/annulus-20.exo -bc_wall 100,101 -physics sw -ufv_cfl 5 -petscfv_type   leastsquares -petsclimiter_type sin -ts_max_time 1 -ts_ssp_type rks2 -ts_ssp_nstages 10 -monitor height,energy

    2368:     test:
    2369:       suffix: sw_hll
    2370:       args: -ufv_vtk_interval 0 -bc_wall 1,2,3,4 -physics sw -ufv_cfl 3 -petscfv_type leastsquares -petsclimiter_type sin -ts_max_steps 5 -ts_ssp_type rks2 -ts_ssp_nstages 10 -monitor height,energy -grid_bounds 0,5,0,5 -dm_plex_box_faces 25,25 -sw_riemann hll

    2372:     # 2D Advection: p4est
    2373:     test:
    2374:       suffix: p4est_advec_2d
    2375:       requires: p4est
    2376:       args: -ufv_vtk_interval 0 -dm_type p4est -dm_forest_minimum_refinement 1 -dm_forest_initial_refinement 2 -dm_p4est_refine_pattern hash   -dm_forest_maximum_refinement 5

    2378:     # Advection in a box
    2379:     test:
    2380:       suffix: adv_2d_quad_0
    2381:       args: -ufv_vtk_interval 0 -dm_refine 3 -dm_plex_separate_marker -bc_inflow 1,2,4 -bc_outflow 3

    2383:     test:
    2384:       suffix: adv_2d_quad_1
    2385:       args: -ufv_vtk_interval 0 -dm_refine 3 -dm_plex_separate_marker -grid_bounds -0.5,0.5,-0.5,0.5 -bc_inflow 1,2,4 -bc_outflow 3 -advect_sol_type bump -advect_bump_center 0.25,0 -advect_bump_radius 0.1
    2386:       timeoutfactor: 3

    2388:     test:
    2389:       suffix: adv_2d_quad_p4est_0
    2390:       requires: p4est
    2391:       args: -ufv_vtk_interval 0 -dm_refine 5 -dm_type p4est -dm_plex_separate_marker -bc_inflow 1,2,4 -bc_outflow 3

    2393:     test:
    2394:       suffix: adv_2d_quad_p4est_1
    2395:       requires: p4est
    2396:       args: -ufv_vtk_interval 0 -dm_refine 5 -dm_type p4est -dm_plex_separate_marker -grid_bounds -0.5,0.5,-0.5,0.5 -bc_inflow 1,2,4 -bc_outflow   3 -advect_sol_type bump -advect_bump_center 0.25,0 -advect_bump_radius 0.1
    2397:       timeoutfactor: 3

    2399:     test:
    2400:       suffix: adv_2d_quad_p4est_adapt_0
    2401:       requires: p4est !__float128 #broken for quad precision
    2402:       args: -ufv_vtk_interval 0 -dm_refine 3 -dm_type p4est -dm_plex_separate_marker -grid_bounds -0.5,0.5,-0.5,0.5 -bc_inflow 1,2,4 -bc_outflow   3 -advect_sol_type bump -advect_bump_center 0.25,0 -advect_bump_radius 0.1 -ufv_use_amr -refine_vec_tagger_box 0.005,inf -coarsen_vec_tagger_box   0,1.e-5 -petscfv_type leastsquares -ts_max_time 0.01
    2403:       timeoutfactor: 3

    2405:     test:
    2406:       suffix: adv_0
    2407:       requires: exodusii
    2408:       args: -ufv_vtk_interval 0 -dm_plex_filename ${wPETSC_DIR}/share/petsc/datafiles/meshes/blockcylinder-50.exo -bc_inflow 100,101,200 -bc_outflow 201

    2410:     test:
    2411:       suffix: shock_0
    2412:       requires: p4est !single !complex
    2413:       args: -dm_plex_box_faces 2,1 -grid_bounds -1,1.,0.,1 -grid_skew_60 \
    2414:       -dm_type p4est -dm_forest_partition_overlap 1 -dm_forest_maximum_refinement 6 -dm_forest_minimum_refinement 2 -dm_forest_initial_refinement 2 \
    2415:       -ufv_use_amr -refine_vec_tagger_box 0.5,inf -coarsen_vec_tagger_box 0,1.e-2 -refine_tag_view -coarsen_tag_view \
    2416:       -bc_wall 1,2,3,4 -physics euler -eu_type iv_shock -ufv_cfl 10 -eu_alpha 60. -eu_gamma 1.4 -eu_amach 2.02 -eu_rho2 3. \
    2417:       -petscfv_type leastsquares -petsclimiter_type minmod -petscfv_compute_gradients 0 \
    2418:       -ts_max_time 0.5 -ts_ssp_type rks2 -ts_ssp_nstages 10 \
    2419:       -ufv_vtk_basename ${wPETSC_DIR}/ex11 -ufv_vtk_interval 0 -monitor density,energy
    2420:       timeoutfactor: 3

    2422:     # Test GLVis visualization of PetscFV fields
    2423:     test:
    2424:       suffix: glvis_adv_2d_tet
    2425:       args: -ufv_vtk_interval 0 -ufv_vtk_monitor 0 \
    2426:             -dm_plex_filename ${wPETSC_DIR}/share/petsc/datafiles/meshes/square_periodic.msh -dm_plex_gmsh_periodic 0 \
    2427:             -ts_monitor_solution glvis: -ts_max_steps 0

    2429:     test:
    2430:       suffix: glvis_adv_2d_quad
    2431:       args: -ufv_vtk_interval 0 -ufv_vtk_monitor 0 -bc_inflow 1,2,4 -bc_outflow 3 \
    2432:             -dm_refine 5 -dm_plex_separate_marker \
    2433:             -ts_monitor_solution glvis: -ts_max_steps 0

    2435: TEST*/