xref: /petsc/src/ts/tutorials/ex11.c (revision e600fa544e2bb197ca2af9b6e65ea465976dec56) 
1c4762a1bSJed Brown static char help[] = "Second Order TVD Finite Volume Example.\n";
2c4762a1bSJed Brown /*F
3c4762a1bSJed Brown 
4c4762a1bSJed Brown We use a second order TVD finite volume method to evolve a system of PDEs. Our simple upwinded residual evaluation loops
5c4762a1bSJed Brown over all mesh faces and uses a Riemann solver to produce the flux given the face geometry and cell values,
6c4762a1bSJed Brown \begin{equation}
7c4762a1bSJed Brown   f_i = \mathrm{riemann}(\mathrm{phys}, p_\mathrm{centroid}, \hat n, x^L, x^R)
8c4762a1bSJed Brown \end{equation}
9c4762a1bSJed Brown and then update the cell values given the cell volume.
10c4762a1bSJed Brown \begin{eqnarray}
11c4762a1bSJed Brown     f^L_i &-=& \frac{f_i}{vol^L} \\
12c4762a1bSJed Brown     f^R_i &+=& \frac{f_i}{vol^R}
13c4762a1bSJed Brown \end{eqnarray}
14c4762a1bSJed Brown 
15c4762a1bSJed Brown As an example, we can consider the shallow water wave equation,
16c4762a1bSJed Brown \begin{eqnarray}
17c4762a1bSJed Brown      h_t + \nabla\cdot \left( uh                              \right) &=& 0 \\
18c4762a1bSJed Brown   (uh)_t + \nabla\cdot \left( u\otimes uh + \frac{g h^2}{2} I \right) &=& 0
19c4762a1bSJed Brown \end{eqnarray}
20c4762a1bSJed Brown where $h$ is wave height, $u$ is wave velocity, and $g$ is the acceleration due to gravity.
21c4762a1bSJed Brown 
22c4762a1bSJed Brown A representative Riemann solver for the shallow water equations is given in the PhysicsRiemann_SW() function,
23c4762a1bSJed Brown \begin{eqnarray}
24c4762a1bSJed Brown   f^{L,R}_h    &=& uh^{L,R} \cdot \hat n \\
25c4762a1bSJed Brown   f^{L,R}_{uh} &=& \frac{f^{L,R}_h}{h^{L,R}} uh^{L,R} + g (h^{L,R})^2 \hat n \\
26c4762a1bSJed Brown   c^{L,R}      &=& \sqrt{g h^{L,R}} \\
27c4762a1bSJed Brown   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) \\
28c4762a1bSJed Brown   f_i          &=& \frac{A_\mathrm{face}}{2} \left( f^L_i + f^R_i + s \left( x^L_i - x^R_i \right) \right)
29c4762a1bSJed Brown \end{eqnarray}
30c4762a1bSJed Brown where $c$ is the local gravity wave speed and $f_i$ is a Rusanov flux.
31c4762a1bSJed Brown 
32c4762a1bSJed Brown The more sophisticated residual evaluation in RHSFunctionLocal_LS() uses a least-squares fit to a quadratic polynomial
33c4762a1bSJed Brown over a neighborhood of the given element.
34c4762a1bSJed Brown 
35c4762a1bSJed Brown The mesh is read in from an ExodusII file, usually generated by Cubit.
36c4762a1bSJed Brown F*/
37c4762a1bSJed Brown #include <petscdmplex.h>
38c4762a1bSJed Brown #include <petscdmforest.h>
39c4762a1bSJed Brown #include <petscds.h>
40c4762a1bSJed Brown #include <petscts.h>
41c4762a1bSJed Brown 
42c4762a1bSJed Brown #define DIM 2                   /* Geometric dimension */
43c4762a1bSJed Brown #define ALEN(a) (sizeof(a)/sizeof((a)[0]))
44c4762a1bSJed Brown 
458d2c18caSMukkund Sunjii static PetscFunctionList PhysicsList, PhysicsRiemannList_SW;
46c4762a1bSJed Brown 
47c4762a1bSJed Brown /* Represents continuum physical equations. */
48c4762a1bSJed Brown typedef struct _n_Physics *Physics;
49c4762a1bSJed Brown 
50c4762a1bSJed Brown /* Physical model includes boundary conditions, initial conditions, and functionals of interest. It is
51c4762a1bSJed Brown  * discretization-independent, but its members depend on the scenario being solved. */
52c4762a1bSJed Brown typedef struct _n_Model *Model;
53c4762a1bSJed Brown 
54c4762a1bSJed Brown /* 'User' implements a discretization of a continuous model. */
55c4762a1bSJed Brown typedef struct _n_User *User;
56c4762a1bSJed Brown typedef PetscErrorCode (*SolutionFunction)(Model,PetscReal,const PetscReal*,PetscScalar*,void*);
5745480ffeSMatthew G. Knepley typedef PetscErrorCode (*SetUpBCFunction)(DM,PetscDS,Physics);
58c4762a1bSJed Brown typedef PetscErrorCode (*FunctionalFunction)(Model,PetscReal,const PetscReal*,const PetscScalar*,PetscReal*,void*);
59c4762a1bSJed Brown typedef PetscErrorCode (*SetupFields)(Physics,PetscSection);
60c4762a1bSJed Brown static PetscErrorCode ModelSolutionSetDefault(Model,SolutionFunction,void*);
61c4762a1bSJed Brown static PetscErrorCode ModelFunctionalRegister(Model,const char*,PetscInt*,FunctionalFunction,void*);
62c4762a1bSJed Brown static PetscErrorCode OutputVTK(DM,const char*,PetscViewer*);
63c4762a1bSJed Brown 
64c4762a1bSJed Brown struct FieldDescription {
65c4762a1bSJed Brown   const char *name;
66c4762a1bSJed Brown   PetscInt dof;
67c4762a1bSJed Brown };
68c4762a1bSJed Brown 
69c4762a1bSJed Brown typedef struct _n_FunctionalLink *FunctionalLink;
70c4762a1bSJed Brown struct _n_FunctionalLink {
71c4762a1bSJed Brown   char               *name;
72c4762a1bSJed Brown   FunctionalFunction func;
73c4762a1bSJed Brown   void               *ctx;
74c4762a1bSJed Brown   PetscInt           offset;
75c4762a1bSJed Brown   FunctionalLink     next;
76c4762a1bSJed Brown };
77c4762a1bSJed Brown 
78c4762a1bSJed Brown struct _n_Physics {
79c4762a1bSJed Brown   PetscRiemannFunc riemann;
80c4762a1bSJed Brown   PetscInt         dof;          /* number of degrees of freedom per cell */
81c4762a1bSJed Brown   PetscReal        maxspeed;     /* kludge to pick initial time step, need to add monitoring and step control */
82c4762a1bSJed Brown   void             *data;
83c4762a1bSJed Brown   PetscInt         nfields;
84c4762a1bSJed Brown   const struct FieldDescription *field_desc;
85c4762a1bSJed Brown };
86c4762a1bSJed Brown 
87c4762a1bSJed Brown struct _n_Model {
88c4762a1bSJed Brown   MPI_Comm         comm;        /* Does not do collective communicaton, but some error conditions can be collective */
89c4762a1bSJed Brown   Physics          physics;
90c4762a1bSJed Brown   FunctionalLink   functionalRegistry;
91c4762a1bSJed Brown   PetscInt         maxComputed;
92c4762a1bSJed Brown   PetscInt         numMonitored;
93c4762a1bSJed Brown   FunctionalLink   *functionalMonitored;
94c4762a1bSJed Brown   PetscInt         numCall;
95c4762a1bSJed Brown   FunctionalLink   *functionalCall;
96c4762a1bSJed Brown   SolutionFunction solution;
97c4762a1bSJed Brown   SetUpBCFunction  setupbc;
98c4762a1bSJed Brown   void             *solutionctx;
99c4762a1bSJed Brown   PetscReal        maxspeed;    /* estimate of global maximum speed (for CFL calculation) */
100c4762a1bSJed Brown   PetscReal        bounds[2*DIM];
101c4762a1bSJed Brown   PetscErrorCode   (*errorIndicator)(PetscInt, PetscReal, PetscInt, const PetscScalar[], const PetscScalar[], PetscReal *, void *);
102c4762a1bSJed Brown   void             *errorCtx;
103c4762a1bSJed Brown };
104c4762a1bSJed Brown 
105c4762a1bSJed Brown struct _n_User {
106c4762a1bSJed Brown   PetscInt vtkInterval;   /* For monitor */
107c4762a1bSJed Brown   char outputBasename[PETSC_MAX_PATH_LEN]; /* Basename for output files */
108c4762a1bSJed Brown   PetscInt monitorStepOffset;
109c4762a1bSJed Brown   Model    model;
110c4762a1bSJed Brown   PetscBool vtkmon;
111c4762a1bSJed Brown };
112c4762a1bSJed Brown 
1139fbee547SJacob Faibussowitsch static inline PetscReal DotDIMReal(const PetscReal *x,const PetscReal *y)
114c4762a1bSJed Brown {
115c4762a1bSJed Brown   PetscInt  i;
116c4762a1bSJed Brown   PetscReal prod=0.0;
117c4762a1bSJed Brown 
118c4762a1bSJed Brown   for (i=0; i<DIM; i++) prod += x[i]*y[i];
119c4762a1bSJed Brown   return prod;
120c4762a1bSJed Brown }
1219fbee547SJacob Faibussowitsch static inline PetscReal NormDIM(const PetscReal *x) { return PetscSqrtReal(PetscAbsReal(DotDIMReal(x,x))); }
122c4762a1bSJed Brown 
1239fbee547SJacob Faibussowitsch static inline PetscReal Dot2Real(const PetscReal *x,const PetscReal *y) { return x[0]*y[0] + x[1]*y[1];}
1249fbee547SJacob Faibussowitsch static inline PetscReal Norm2Real(const PetscReal *x) { return PetscSqrtReal(PetscAbsReal(Dot2Real(x,x)));}
1259fbee547SJacob Faibussowitsch static inline void Normalize2Real(PetscReal *x) { PetscReal a = 1./Norm2Real(x); x[0] *= a; x[1] *= a; }
1269fbee547SJacob Faibussowitsch 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]; }
1279fbee547SJacob Faibussowitsch static inline void Scale2Real(PetscReal a,const PetscReal *x,PetscReal *y) { y[0] = a*x[0]; y[1] = a*x[1]; }
128c4762a1bSJed Brown 
129c4762a1bSJed Brown /******************* Advect ********************/
130c4762a1bSJed Brown typedef enum {ADVECT_SOL_TILTED,ADVECT_SOL_BUMP,ADVECT_SOL_BUMP_CAVITY} AdvectSolType;
131c4762a1bSJed Brown static const char *const AdvectSolTypes[] = {"TILTED","BUMP","BUMP_CAVITY","AdvectSolType","ADVECT_SOL_",0};
132c4762a1bSJed Brown typedef enum {ADVECT_SOL_BUMP_CONE,ADVECT_SOL_BUMP_COS} AdvectSolBumpType;
133c4762a1bSJed Brown static const char *const AdvectSolBumpTypes[] = {"CONE","COS","AdvectSolBumpType","ADVECT_SOL_BUMP_",0};
134c4762a1bSJed Brown 
135c4762a1bSJed Brown typedef struct {
136c4762a1bSJed Brown   PetscReal wind[DIM];
137c4762a1bSJed Brown } Physics_Advect_Tilted;
138c4762a1bSJed Brown typedef struct {
139c4762a1bSJed Brown   PetscReal         center[DIM];
140c4762a1bSJed Brown   PetscReal         radius;
141c4762a1bSJed Brown   AdvectSolBumpType type;
142c4762a1bSJed Brown } Physics_Advect_Bump;
143c4762a1bSJed Brown 
144c4762a1bSJed Brown typedef struct {
145c4762a1bSJed Brown   PetscReal     inflowState;
146c4762a1bSJed Brown   AdvectSolType soltype;
147c4762a1bSJed Brown   union {
148c4762a1bSJed Brown     Physics_Advect_Tilted tilted;
149c4762a1bSJed Brown     Physics_Advect_Bump   bump;
150c4762a1bSJed Brown   } sol;
151c4762a1bSJed Brown   struct {
152c4762a1bSJed Brown     PetscInt Solution;
153c4762a1bSJed Brown     PetscInt Error;
154c4762a1bSJed Brown   } functional;
155c4762a1bSJed Brown } Physics_Advect;
156c4762a1bSJed Brown 
157c4762a1bSJed Brown static const struct FieldDescription PhysicsFields_Advect[] = {{"U",1},{NULL,0}};
158c4762a1bSJed Brown 
159c4762a1bSJed Brown static PetscErrorCode PhysicsBoundary_Advect_Inflow(PetscReal time, const PetscReal *c, const PetscReal *n, const PetscScalar *xI, PetscScalar *xG, void *ctx)
160c4762a1bSJed Brown {
161c4762a1bSJed Brown   Physics        phys    = (Physics)ctx;
162c4762a1bSJed Brown   Physics_Advect *advect = (Physics_Advect*)phys->data;
163c4762a1bSJed Brown 
164c4762a1bSJed Brown   PetscFunctionBeginUser;
165c4762a1bSJed Brown   xG[0] = advect->inflowState;
166c4762a1bSJed Brown   PetscFunctionReturn(0);
167c4762a1bSJed Brown }
168c4762a1bSJed Brown 
169c4762a1bSJed Brown static PetscErrorCode PhysicsBoundary_Advect_Outflow(PetscReal time, const PetscReal *c, const PetscReal *n, const PetscScalar *xI, PetscScalar *xG, void *ctx)
170c4762a1bSJed Brown {
171c4762a1bSJed Brown   PetscFunctionBeginUser;
172c4762a1bSJed Brown   xG[0] = xI[0];
173c4762a1bSJed Brown   PetscFunctionReturn(0);
174c4762a1bSJed Brown }
175c4762a1bSJed Brown 
176c4762a1bSJed Brown 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)
177c4762a1bSJed Brown {
178c4762a1bSJed Brown   Physics_Advect *advect = (Physics_Advect*)phys->data;
179c4762a1bSJed Brown   PetscReal      wind[DIM],wn;
180c4762a1bSJed Brown 
181c4762a1bSJed Brown   switch (advect->soltype) {
182c4762a1bSJed Brown   case ADVECT_SOL_TILTED: {
183c4762a1bSJed Brown     Physics_Advect_Tilted *tilted = &advect->sol.tilted;
184c4762a1bSJed Brown     wind[0] = tilted->wind[0];
185c4762a1bSJed Brown     wind[1] = tilted->wind[1];
186c4762a1bSJed Brown   } break;
187c4762a1bSJed Brown   case ADVECT_SOL_BUMP:
188c4762a1bSJed Brown     wind[0] = -qp[1];
189c4762a1bSJed Brown     wind[1] = qp[0];
190c4762a1bSJed Brown     break;
191c4762a1bSJed Brown   case ADVECT_SOL_BUMP_CAVITY:
192c4762a1bSJed Brown     {
193c4762a1bSJed Brown       PetscInt  i;
194c4762a1bSJed Brown       PetscReal comp2[3] = {0.,0.,0.}, rad2;
195c4762a1bSJed Brown 
196c4762a1bSJed Brown       rad2 = 0.;
197c4762a1bSJed Brown       for (i = 0; i < dim; i++) {
198c4762a1bSJed Brown         comp2[i] = qp[i] * qp[i];
199c4762a1bSJed Brown         rad2    += comp2[i];
200c4762a1bSJed Brown       }
201c4762a1bSJed Brown 
202c4762a1bSJed Brown       wind[0] = -qp[1];
203c4762a1bSJed Brown       wind[1] = qp[0];
204c4762a1bSJed Brown       if (rad2 > 1.) {
205c4762a1bSJed Brown         PetscInt  maxI = 0;
206c4762a1bSJed Brown         PetscReal maxComp2 = comp2[0];
207c4762a1bSJed Brown 
208c4762a1bSJed Brown         for (i = 1; i < dim; i++) {
209c4762a1bSJed Brown           if (comp2[i] > maxComp2) {
210c4762a1bSJed Brown             maxI     = i;
211c4762a1bSJed Brown             maxComp2 = comp2[i];
212c4762a1bSJed Brown           }
213c4762a1bSJed Brown         }
214c4762a1bSJed Brown         wind[maxI] = 0.;
215c4762a1bSJed Brown       }
216c4762a1bSJed Brown     }
217c4762a1bSJed Brown     break;
218c4762a1bSJed Brown   default:
219c4762a1bSJed Brown   {
220c4762a1bSJed Brown     PetscInt i;
221c4762a1bSJed Brown     for (i = 0; i < DIM; ++i) wind[i] = 0.0;
222c4762a1bSJed Brown   }
22398921bdaSJacob Faibussowitsch   /* default: SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"No support for solution type %s",AdvectSolBumpTypes[advect->soltype]); */
224c4762a1bSJed Brown   }
225c4762a1bSJed Brown   wn      = Dot2Real(wind, n);
226c4762a1bSJed Brown   flux[0] = (wn > 0 ? xL[0] : xR[0]) * wn;
227c4762a1bSJed Brown }
228c4762a1bSJed Brown 
229c4762a1bSJed Brown static PetscErrorCode PhysicsSolution_Advect(Model mod,PetscReal time,const PetscReal *x,PetscScalar *u,void *ctx)
230c4762a1bSJed Brown {
231c4762a1bSJed Brown   Physics        phys    = (Physics)ctx;
232c4762a1bSJed Brown   Physics_Advect *advect = (Physics_Advect*)phys->data;
233c4762a1bSJed Brown 
234c4762a1bSJed Brown   PetscFunctionBeginUser;
235c4762a1bSJed Brown   switch (advect->soltype) {
236c4762a1bSJed Brown   case ADVECT_SOL_TILTED: {
237c4762a1bSJed Brown     PetscReal             x0[DIM];
238c4762a1bSJed Brown     Physics_Advect_Tilted *tilted = &advect->sol.tilted;
239c4762a1bSJed Brown     Waxpy2Real(-time,tilted->wind,x,x0);
240c4762a1bSJed Brown     if (x0[1] > 0) u[0] = 1.*x[0] + 3.*x[1];
241c4762a1bSJed Brown     else u[0] = advect->inflowState;
242c4762a1bSJed Brown   } break;
243c4762a1bSJed Brown   case ADVECT_SOL_BUMP_CAVITY:
244c4762a1bSJed Brown   case ADVECT_SOL_BUMP: {
245c4762a1bSJed Brown     Physics_Advect_Bump *bump = &advect->sol.bump;
246c4762a1bSJed Brown     PetscReal           x0[DIM],v[DIM],r,cost,sint;
247c4762a1bSJed Brown     cost  = PetscCosReal(time);
248c4762a1bSJed Brown     sint  = PetscSinReal(time);
249c4762a1bSJed Brown     x0[0] = cost*x[0] + sint*x[1];
250c4762a1bSJed Brown     x0[1] = -sint*x[0] + cost*x[1];
251c4762a1bSJed Brown     Waxpy2Real(-1,bump->center,x0,v);
252c4762a1bSJed Brown     r = Norm2Real(v);
253c4762a1bSJed Brown     switch (bump->type) {
254c4762a1bSJed Brown     case ADVECT_SOL_BUMP_CONE:
255c4762a1bSJed Brown       u[0] = PetscMax(1 - r/bump->radius,0);
256c4762a1bSJed Brown       break;
257c4762a1bSJed Brown     case ADVECT_SOL_BUMP_COS:
258c4762a1bSJed Brown       u[0] = 0.5 + 0.5*PetscCosReal(PetscMin(r/bump->radius,1)*PETSC_PI);
259c4762a1bSJed Brown       break;
260c4762a1bSJed Brown     }
261c4762a1bSJed Brown   } break;
262c4762a1bSJed Brown   default: SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"Unknown solution type");
263c4762a1bSJed Brown   }
264c4762a1bSJed Brown   PetscFunctionReturn(0);
265c4762a1bSJed Brown }
266c4762a1bSJed Brown 
267c4762a1bSJed Brown static PetscErrorCode PhysicsFunctional_Advect(Model mod,PetscReal time,const PetscReal *x,const PetscScalar *y,PetscReal *f,void *ctx)
268c4762a1bSJed Brown {
269c4762a1bSJed Brown   Physics        phys    = (Physics)ctx;
270c4762a1bSJed Brown   Physics_Advect *advect = (Physics_Advect*)phys->data;
271391faea4SSatish Balay   PetscScalar    yexact[1] = {0.0};
272c4762a1bSJed Brown   PetscErrorCode ierr;
273c4762a1bSJed Brown 
274c4762a1bSJed Brown   PetscFunctionBeginUser;
275c4762a1bSJed Brown   ierr = PhysicsSolution_Advect(mod,time,x,yexact,phys);CHKERRQ(ierr);
276c4762a1bSJed Brown   f[advect->functional.Solution] = PetscRealPart(y[0]);
277c4762a1bSJed Brown   f[advect->functional.Error] = PetscAbsScalar(y[0]-yexact[0]);
278c4762a1bSJed Brown   PetscFunctionReturn(0);
279c4762a1bSJed Brown }
280c4762a1bSJed Brown 
28145480ffeSMatthew G. Knepley static PetscErrorCode SetUpBC_Advect(DM dm, PetscDS prob, Physics phys)
282c4762a1bSJed Brown {
283c4762a1bSJed Brown   PetscErrorCode ierr;
284c4762a1bSJed Brown   const PetscInt inflowids[] = {100,200,300},outflowids[] = {101};
28545480ffeSMatthew G. Knepley   DMLabel        label;
286c4762a1bSJed Brown 
287c4762a1bSJed Brown   PetscFunctionBeginUser;
288c4762a1bSJed Brown   /* Register "canned" boundary conditions and defaults for where to apply. */
28945480ffeSMatthew G. Knepley   ierr = DMGetLabel(dm, "Face Sets", &label);CHKERRQ(ierr);
29045480ffeSMatthew G. Knepley   ierr = PetscDSAddBoundary(prob, DM_BC_NATURAL_RIEMANN, "inflow",  label, ALEN(inflowids),  inflowids,  0, 0, NULL, (void (*)(void)) PhysicsBoundary_Advect_Inflow, NULL,  phys, NULL);CHKERRQ(ierr);
29145480ffeSMatthew G. Knepley   ierr = PetscDSAddBoundary(prob, DM_BC_NATURAL_RIEMANN, "outflow", label, ALEN(outflowids), outflowids, 0, 0, NULL, (void (*)(void)) PhysicsBoundary_Advect_Outflow, NULL, phys, NULL);CHKERRQ(ierr);
292c4762a1bSJed Brown   PetscFunctionReturn(0);
293c4762a1bSJed Brown }
294c4762a1bSJed Brown 
295c4762a1bSJed Brown static PetscErrorCode PhysicsCreate_Advect(Model mod,Physics phys,PetscOptionItems *PetscOptionsObject)
296c4762a1bSJed Brown {
297c4762a1bSJed Brown   Physics_Advect *advect;
298c4762a1bSJed Brown   PetscErrorCode ierr;
299c4762a1bSJed Brown 
300c4762a1bSJed Brown   PetscFunctionBeginUser;
301c4762a1bSJed Brown   phys->field_desc = PhysicsFields_Advect;
302c4762a1bSJed Brown   phys->riemann    = (PetscRiemannFunc)PhysicsRiemann_Advect;
303c4762a1bSJed Brown   ierr = PetscNew(&advect);CHKERRQ(ierr);
304c4762a1bSJed Brown   phys->data       = advect;
305c4762a1bSJed Brown   mod->setupbc = SetUpBC_Advect;
306c4762a1bSJed Brown 
307c4762a1bSJed Brown   ierr = PetscOptionsHead(PetscOptionsObject,"Advect options");CHKERRQ(ierr);
308c4762a1bSJed Brown   {
309c4762a1bSJed Brown     PetscInt two = 2,dof = 1;
310c4762a1bSJed Brown     advect->soltype = ADVECT_SOL_TILTED;
311c4762a1bSJed Brown     ierr = PetscOptionsEnum("-advect_sol_type","solution type","",AdvectSolTypes,(PetscEnum)advect->soltype,(PetscEnum*)&advect->soltype,NULL);CHKERRQ(ierr);
312c4762a1bSJed Brown     switch (advect->soltype) {
313c4762a1bSJed Brown     case ADVECT_SOL_TILTED: {
314c4762a1bSJed Brown       Physics_Advect_Tilted *tilted = &advect->sol.tilted;
315c4762a1bSJed Brown       two = 2;
316c4762a1bSJed Brown       tilted->wind[0] = 0.0;
317c4762a1bSJed Brown       tilted->wind[1] = 1.0;
318c4762a1bSJed Brown       ierr = PetscOptionsRealArray("-advect_tilted_wind","background wind vx,vy","",tilted->wind,&two,NULL);CHKERRQ(ierr);
319c4762a1bSJed Brown       advect->inflowState = -2.0;
320c4762a1bSJed Brown       ierr = PetscOptionsRealArray("-advect_tilted_inflow","Inflow state","",&advect->inflowState,&dof,NULL);CHKERRQ(ierr);
321c4762a1bSJed Brown       phys->maxspeed = Norm2Real(tilted->wind);
322c4762a1bSJed Brown     } break;
323c4762a1bSJed Brown     case ADVECT_SOL_BUMP_CAVITY:
324c4762a1bSJed Brown     case ADVECT_SOL_BUMP: {
325c4762a1bSJed Brown       Physics_Advect_Bump *bump = &advect->sol.bump;
326c4762a1bSJed Brown       two = 2;
327c4762a1bSJed Brown       bump->center[0] = 2.;
328c4762a1bSJed Brown       bump->center[1] = 0.;
329c4762a1bSJed Brown       ierr = PetscOptionsRealArray("-advect_bump_center","location of center of bump x,y","",bump->center,&two,NULL);CHKERRQ(ierr);
330c4762a1bSJed Brown       bump->radius = 0.9;
331c4762a1bSJed Brown       ierr = PetscOptionsReal("-advect_bump_radius","radius of bump","",bump->radius,&bump->radius,NULL);CHKERRQ(ierr);
332c4762a1bSJed Brown       bump->type = ADVECT_SOL_BUMP_CONE;
333c4762a1bSJed Brown       ierr = PetscOptionsEnum("-advect_bump_type","type of bump","",AdvectSolBumpTypes,(PetscEnum)bump->type,(PetscEnum*)&bump->type,NULL);CHKERRQ(ierr);
334c4762a1bSJed Brown       phys->maxspeed = 3.;       /* radius of mesh, kludge */
335c4762a1bSJed Brown     } break;
336c4762a1bSJed Brown     }
337c4762a1bSJed Brown   }
338c4762a1bSJed Brown   ierr = PetscOptionsTail();CHKERRQ(ierr);
339c4762a1bSJed Brown   /* Initial/transient solution with default boundary conditions */
340c4762a1bSJed Brown   ierr = ModelSolutionSetDefault(mod,PhysicsSolution_Advect,phys);CHKERRQ(ierr);
341c4762a1bSJed Brown   /* Register "canned" functionals */
342c4762a1bSJed Brown   ierr = ModelFunctionalRegister(mod,"Solution",&advect->functional.Solution,PhysicsFunctional_Advect,phys);CHKERRQ(ierr);
343c4762a1bSJed Brown   ierr = ModelFunctionalRegister(mod,"Error",&advect->functional.Error,PhysicsFunctional_Advect,phys);CHKERRQ(ierr);
344c4762a1bSJed Brown   PetscFunctionReturn(0);
345c4762a1bSJed Brown }
346c4762a1bSJed Brown 
347c4762a1bSJed Brown /******************* Shallow Water ********************/
348c4762a1bSJed Brown typedef struct {
349c4762a1bSJed Brown   PetscReal gravity;
350c4762a1bSJed Brown   PetscReal boundaryHeight;
351c4762a1bSJed Brown   struct {
352c4762a1bSJed Brown     PetscInt Height;
353c4762a1bSJed Brown     PetscInt Speed;
354c4762a1bSJed Brown     PetscInt Energy;
355c4762a1bSJed Brown   } functional;
356c4762a1bSJed Brown } Physics_SW;
357c4762a1bSJed Brown typedef struct {
358c4762a1bSJed Brown   PetscReal h;
359c4762a1bSJed Brown   PetscReal uh[DIM];
360c4762a1bSJed Brown } SWNode;
361c4762a1bSJed Brown typedef union {
362c4762a1bSJed Brown   SWNode    swnode;
363c4762a1bSJed Brown   PetscReal vals[DIM+1];
364c4762a1bSJed Brown } SWNodeUnion;
365c4762a1bSJed Brown 
366c4762a1bSJed Brown static const struct FieldDescription PhysicsFields_SW[] = {{"Height",1},{"Momentum",DIM},{NULL,0}};
367c4762a1bSJed Brown 
368c4762a1bSJed Brown /*
369c4762a1bSJed Brown  * h_t + div(uh) = 0
370c4762a1bSJed Brown  * (uh)_t + div (u\otimes uh + g h^2 / 2 I) = 0
371c4762a1bSJed Brown  *
372c4762a1bSJed Brown  * */
373c4762a1bSJed Brown static PetscErrorCode SWFlux(Physics phys,const PetscReal *n,const SWNode *x,SWNode *f)
374c4762a1bSJed Brown {
375c4762a1bSJed Brown   Physics_SW  *sw = (Physics_SW*)phys->data;
376c4762a1bSJed Brown   PetscReal   uhn,u[DIM];
377c4762a1bSJed Brown   PetscInt     i;
378c4762a1bSJed Brown 
379c4762a1bSJed Brown   PetscFunctionBeginUser;
380c4762a1bSJed Brown   Scale2Real(1./x->h,x->uh,u);
381c4762a1bSJed Brown   uhn  = x->uh[0] * n[0] + x->uh[1] * n[1];
382c4762a1bSJed Brown   f->h = uhn;
383c4762a1bSJed Brown   for (i=0; i<DIM; i++) f->uh[i] = u[i] * uhn + sw->gravity * PetscSqr(x->h) * n[i];
384c4762a1bSJed Brown   PetscFunctionReturn(0);
385c4762a1bSJed Brown }
386c4762a1bSJed Brown 
387c4762a1bSJed Brown static PetscErrorCode PhysicsBoundary_SW_Wall(PetscReal time, const PetscReal *c, const PetscReal *n, const PetscScalar *xI, PetscScalar *xG, void *ctx)
388c4762a1bSJed Brown {
389c4762a1bSJed Brown   PetscFunctionBeginUser;
390c4762a1bSJed Brown   xG[0] = xI[0];
391c4762a1bSJed Brown   xG[1] = -xI[1];
392c4762a1bSJed Brown   xG[2] = -xI[2];
393c4762a1bSJed Brown   PetscFunctionReturn(0);
394c4762a1bSJed Brown }
395c4762a1bSJed Brown 
3968d2c18caSMukkund Sunjii 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)
3978d2c18caSMukkund Sunjii {
3988d2c18caSMukkund Sunjii   Physics_SW *sw = (Physics_SW *) phys->data;
3998d2c18caSMukkund Sunjii   PetscReal aL, aR;
4008d2c18caSMukkund Sunjii   PetscReal nn[DIM];
4018d2c18caSMukkund Sunjii #if !defined(PETSC_USE_COMPLEX)
4028d2c18caSMukkund Sunjii   const SWNode *uL = (const SWNode *) xL, *uR = (const SWNode *) xR;
4038d2c18caSMukkund Sunjii #else
4048d2c18caSMukkund Sunjii   SWNodeUnion  uLreal, uRreal;
4058d2c18caSMukkund Sunjii   const SWNode *uL = &uLreal.swnode;
4068d2c18caSMukkund Sunjii   const SWNode *uR = &uRreal.swnode;
4078d2c18caSMukkund Sunjii #endif
4088d2c18caSMukkund Sunjii   SWNodeUnion fL, fR;
4098d2c18caSMukkund Sunjii   PetscInt i;
4108d2c18caSMukkund Sunjii   PetscReal zero = 0.;
4118d2c18caSMukkund Sunjii 
4128d2c18caSMukkund Sunjii #if defined(PETSC_USE_COMPLEX)
4138d2c18caSMukkund Sunjii   uLreal.swnode.h = 0; uRreal.swnode.h = 0;
4148d2c18caSMukkund Sunjii   for (i = 0; i < 1+dim; i++) uLreal.vals[i] = PetscRealPart(xL[i]);
4158d2c18caSMukkund Sunjii   for (i = 0; i < 1+dim; i++) uRreal.vals[i] = PetscRealPart(xR[i]);
4168d2c18caSMukkund Sunjii #endif
4178d2c18caSMukkund Sunjii   if (uL->h <= 0 || uR->h <= 0) {
4188d2c18caSMukkund Sunjii     for (i = 0; i < 1 + dim; i++) flux[i] = zero;
4198d2c18caSMukkund Sunjii     return;
4208d2c18caSMukkund Sunjii   } /* SETERRQ(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Reconstructed thickness is negative"); */
4218d2c18caSMukkund Sunjii   nn[0] = n[0];
4228d2c18caSMukkund Sunjii   nn[1] = n[1];
4238d2c18caSMukkund Sunjii   Normalize2Real(nn);
4248d2c18caSMukkund Sunjii   SWFlux(phys, nn, uL, &(fL.swnode));
4258d2c18caSMukkund Sunjii   SWFlux(phys, nn, uR, &(fR.swnode));
4268d2c18caSMukkund Sunjii   /* gravity wave speed */
4278d2c18caSMukkund Sunjii   aL = PetscSqrtReal(sw->gravity * uL->h);
4288d2c18caSMukkund Sunjii   aR = PetscSqrtReal(sw->gravity * uR->h);
4298d2c18caSMukkund Sunjii   // Defining u_tilda and v_tilda as u and v
4308d2c18caSMukkund Sunjii   PetscReal u_L, u_R;
4318d2c18caSMukkund Sunjii   u_L = Dot2Real(uL->uh,nn)/uL->h;
4328d2c18caSMukkund Sunjii   u_R = Dot2Real(uR->uh,nn)/uR->h;
4338d2c18caSMukkund Sunjii   PetscReal sL, sR;
4348d2c18caSMukkund Sunjii   sL = PetscMin(u_L - aL, u_R - aR);
4358d2c18caSMukkund Sunjii   sR = PetscMax(u_L + aL, u_R + aR);
4368d2c18caSMukkund Sunjii   if (sL > zero) {
4378d2c18caSMukkund Sunjii     for (i = 0; i < dim + 1; i++) {
4388d2c18caSMukkund Sunjii       flux[i] = fL.vals[i] * Norm2Real(n);
4398d2c18caSMukkund Sunjii     }
4408d2c18caSMukkund Sunjii   } else if (sR < zero) {
4418d2c18caSMukkund Sunjii     for (i = 0; i < dim + 1; i++) {
4428d2c18caSMukkund Sunjii       flux[i] = fR.vals[i] * Norm2Real(n);
4438d2c18caSMukkund Sunjii     }
4448d2c18caSMukkund Sunjii   } else {
4458d2c18caSMukkund Sunjii     for (i = 0; i < dim + 1; i++) {
4468d2c18caSMukkund Sunjii       flux[i] = ((sR * fL.vals[i] - sL * fR.vals[i] + sR * sL * (xR[i] - xL[i])) / (sR - sL)) * Norm2Real(n);
4478d2c18caSMukkund Sunjii     }
4488d2c18caSMukkund Sunjii   }
4498d2c18caSMukkund Sunjii }
4508d2c18caSMukkund Sunjii 
4518d2c18caSMukkund Sunjii 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)
452c4762a1bSJed Brown {
453c4762a1bSJed Brown   Physics_SW   *sw = (Physics_SW*)phys->data;
454c4762a1bSJed Brown   PetscReal    cL,cR,speed;
455c4762a1bSJed Brown   PetscReal    nn[DIM];
456c4762a1bSJed Brown #if !defined(PETSC_USE_COMPLEX)
457c4762a1bSJed Brown   const SWNode *uL = (const SWNode*)xL,*uR = (const SWNode*)xR;
458c4762a1bSJed Brown #else
459c4762a1bSJed Brown   SWNodeUnion  uLreal, uRreal;
460c4762a1bSJed Brown   const SWNode *uL = &uLreal.swnode;
461c4762a1bSJed Brown   const SWNode *uR = &uRreal.swnode;
462c4762a1bSJed Brown #endif
463c4762a1bSJed Brown   SWNodeUnion  fL,fR;
464c4762a1bSJed Brown   PetscInt     i;
465c4762a1bSJed Brown   PetscReal    zero=0.;
466c4762a1bSJed Brown 
467c4762a1bSJed Brown #if defined(PETSC_USE_COMPLEX)
468c4762a1bSJed Brown   uLreal.swnode.h = 0; uRreal.swnode.h = 0;
469c4762a1bSJed Brown   for (i = 0; i < 1+dim; i++) uLreal.vals[i] = PetscRealPart(xL[i]);
470c4762a1bSJed Brown   for (i = 0; i < 1+dim; i++) uRreal.vals[i] = PetscRealPart(xR[i]);
471c4762a1bSJed Brown #endif
472c4762a1bSJed Brown   if (uL->h < 0 || uR->h < 0) {for (i=0; i<1+dim; i++) flux[i] = zero/zero; return;} /* SETERRQ(PETSC_COMM_SELF,PETSC_ERR_ARG_OUTOFRANGE,"Reconstructed thickness is negative"); */
473c4762a1bSJed Brown   nn[0] = n[0];
474c4762a1bSJed Brown   nn[1] = n[1];
475c4762a1bSJed Brown   Normalize2Real(nn);
476c4762a1bSJed Brown   SWFlux(phys,nn,uL,&(fL.swnode));
477c4762a1bSJed Brown   SWFlux(phys,nn,uR,&(fR.swnode));
478c4762a1bSJed Brown   cL    = PetscSqrtReal(sw->gravity*uL->h);
479c4762a1bSJed Brown   cR    = PetscSqrtReal(sw->gravity*uR->h); /* gravity wave speed */
480c4762a1bSJed Brown   speed = PetscMax(PetscAbsReal(Dot2Real(uL->uh,nn)/uL->h) + cL,PetscAbsReal(Dot2Real(uR->uh,nn)/uR->h) + cR);
481c4762a1bSJed Brown   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);
482c4762a1bSJed Brown }
483c4762a1bSJed Brown 
484c4762a1bSJed Brown static PetscErrorCode PhysicsSolution_SW(Model mod,PetscReal time,const PetscReal *x,PetscScalar *u,void *ctx)
485c4762a1bSJed Brown {
486c4762a1bSJed Brown   PetscReal dx[2],r,sigma;
487c4762a1bSJed Brown 
488c4762a1bSJed Brown   PetscFunctionBeginUser;
4892c71b3e2SJacob Faibussowitsch   PetscCheckFalse(time != 0.0,mod->comm,PETSC_ERR_SUP,"No solution known for time %g",(double)time);
490c4762a1bSJed Brown   dx[0] = x[0] - 1.5;
491c4762a1bSJed Brown   dx[1] = x[1] - 1.0;
492c4762a1bSJed Brown   r     = Norm2Real(dx);
493c4762a1bSJed Brown   sigma = 0.5;
494c4762a1bSJed Brown   u[0]  = 1 + 2*PetscExpReal(-PetscSqr(r)/(2*PetscSqr(sigma)));
495c4762a1bSJed Brown   u[1]  = 0.0;
496c4762a1bSJed Brown   u[2]  = 0.0;
497c4762a1bSJed Brown   PetscFunctionReturn(0);
498c4762a1bSJed Brown }
499c4762a1bSJed Brown 
500c4762a1bSJed Brown static PetscErrorCode PhysicsFunctional_SW(Model mod,PetscReal time,const PetscReal *coord,const PetscScalar *xx,PetscReal *f,void *ctx)
501c4762a1bSJed Brown {
502c4762a1bSJed Brown   Physics      phys = (Physics)ctx;
503c4762a1bSJed Brown   Physics_SW   *sw  = (Physics_SW*)phys->data;
504c4762a1bSJed Brown   const SWNode *x   = (const SWNode*)xx;
505c4762a1bSJed Brown   PetscReal  u[2];
506c4762a1bSJed Brown   PetscReal    h;
507c4762a1bSJed Brown 
508c4762a1bSJed Brown   PetscFunctionBeginUser;
509c4762a1bSJed Brown   h = x->h;
510c4762a1bSJed Brown   Scale2Real(1./x->h,x->uh,u);
511c4762a1bSJed Brown   f[sw->functional.Height] = h;
512c4762a1bSJed Brown   f[sw->functional.Speed]  = Norm2Real(u) + PetscSqrtReal(sw->gravity*h);
513c4762a1bSJed Brown   f[sw->functional.Energy] = 0.5*(Dot2Real(x->uh,u) + sw->gravity*PetscSqr(h));
514c4762a1bSJed Brown   PetscFunctionReturn(0);
515c4762a1bSJed Brown }
516c4762a1bSJed Brown 
51745480ffeSMatthew G. Knepley static PetscErrorCode SetUpBC_SW(DM dm, PetscDS prob,Physics phys)
518c4762a1bSJed Brown {
519c4762a1bSJed Brown   PetscErrorCode ierr;
520c4762a1bSJed Brown   const PetscInt wallids[] = {100,101,200,300};
52145480ffeSMatthew G. Knepley   DMLabel        label;
52245480ffeSMatthew G. Knepley 
523c4762a1bSJed Brown   PetscFunctionBeginUser;
52445480ffeSMatthew G. Knepley   ierr = DMGetLabel(dm, "Face Sets", &label);CHKERRQ(ierr);
52545480ffeSMatthew G. Knepley   ierr = PetscDSAddBoundary(prob, DM_BC_NATURAL_RIEMANN, "wall", label, ALEN(wallids), wallids, 0, 0, NULL, (void (*)(void)) PhysicsBoundary_SW_Wall, NULL, phys, NULL);CHKERRQ(ierr);
526c4762a1bSJed Brown   PetscFunctionReturn(0);
527c4762a1bSJed Brown }
528c4762a1bSJed Brown 
529c4762a1bSJed Brown static PetscErrorCode PhysicsCreate_SW(Model mod,Physics phys,PetscOptionItems *PetscOptionsObject)
530c4762a1bSJed Brown {
531c4762a1bSJed Brown   Physics_SW     *sw;
5328d2c18caSMukkund Sunjii   char           sw_riemann[64] = "rusanov";
533c4762a1bSJed Brown   PetscErrorCode ierr;
534c4762a1bSJed Brown 
535c4762a1bSJed Brown   PetscFunctionBeginUser;
536c4762a1bSJed Brown   phys->field_desc = PhysicsFields_SW;
537c4762a1bSJed Brown   ierr          = PetscNew(&sw);CHKERRQ(ierr);
538c4762a1bSJed Brown   phys->data    = sw;
539c4762a1bSJed Brown   mod->setupbc  = SetUpBC_SW;
540c4762a1bSJed Brown 
5418d2c18caSMukkund Sunjii   PetscFunctionListAdd(&PhysicsRiemannList_SW, "rusanov", PhysicsRiemann_SW_Rusanov);
5428d2c18caSMukkund Sunjii   PetscFunctionListAdd(&PhysicsRiemannList_SW, "hll", PhysicsRiemann_SW_HLL);
5438d2c18caSMukkund Sunjii 
544c4762a1bSJed Brown   ierr          = PetscOptionsHead(PetscOptionsObject,"SW options");CHKERRQ(ierr);
545c4762a1bSJed Brown   {
5468d2c18caSMukkund Sunjii     void (*PhysicsRiemann_SW)(PetscInt, PetscInt, const PetscReal *, const PetscReal *, const PetscScalar *, const PetscScalar *, PetscInt, const PetscScalar, PetscScalar *, Physics);
547c4762a1bSJed Brown     sw->gravity = 1.0;
548c4762a1bSJed Brown     ierr = PetscOptionsReal("-sw_gravity","Gravitational constant","",sw->gravity,&sw->gravity,NULL);CHKERRQ(ierr);
5498d2c18caSMukkund Sunjii     ierr = PetscOptionsFList("-sw_riemann","Riemann solver","",PhysicsRiemannList_SW,sw_riemann,sw_riemann,sizeof sw_riemann,NULL);CHKERRQ(ierr);
5508d2c18caSMukkund Sunjii     ierr = PetscFunctionListFind(PhysicsRiemannList_SW,sw_riemann,&PhysicsRiemann_SW);CHKERRQ(ierr);
5518d2c18caSMukkund Sunjii     phys->riemann = (PetscRiemannFunc) PhysicsRiemann_SW;
552c4762a1bSJed Brown   }
553c4762a1bSJed Brown   ierr = PetscOptionsTail();CHKERRQ(ierr);
554c4762a1bSJed Brown   phys->maxspeed = PetscSqrtReal(2.0*sw->gravity); /* Mach 1 for depth of 2 */
555c4762a1bSJed Brown 
556c4762a1bSJed Brown   ierr = ModelSolutionSetDefault(mod,PhysicsSolution_SW,phys);CHKERRQ(ierr);
557c4762a1bSJed Brown   ierr = ModelFunctionalRegister(mod,"Height",&sw->functional.Height,PhysicsFunctional_SW,phys);CHKERRQ(ierr);
558c4762a1bSJed Brown   ierr = ModelFunctionalRegister(mod,"Speed",&sw->functional.Speed,PhysicsFunctional_SW,phys);CHKERRQ(ierr);
559c4762a1bSJed Brown   ierr = ModelFunctionalRegister(mod,"Energy",&sw->functional.Energy,PhysicsFunctional_SW,phys);CHKERRQ(ierr);
560c4762a1bSJed Brown 
561c4762a1bSJed Brown   PetscFunctionReturn(0);
562c4762a1bSJed Brown }
563c4762a1bSJed Brown 
564c4762a1bSJed Brown /******************* Euler Density Shock (EULER_IV_SHOCK,EULER_SS_SHOCK) ********************/
565c4762a1bSJed Brown /* An initial-value and self-similar solutions of the compressible Euler equations */
566c4762a1bSJed Brown /* Ravi Samtaney and D. I. Pullin */
567c4762a1bSJed Brown /* Phys. Fluids 8, 2650 (1996); http://dx.doi.org/10.1063/1.869050 */
568c4762a1bSJed Brown typedef enum {EULER_PAR_GAMMA,EULER_PAR_RHOR,EULER_PAR_AMACH,EULER_PAR_ITANA,EULER_PAR_SIZE} EulerParamIdx;
569c4762a1bSJed Brown typedef enum {EULER_IV_SHOCK,EULER_SS_SHOCK,EULER_SHOCK_TUBE,EULER_LINEAR_WAVE} EulerType;
570c4762a1bSJed Brown typedef struct {
571c4762a1bSJed Brown   PetscReal r;
572c4762a1bSJed Brown   PetscReal ru[DIM];
573c4762a1bSJed Brown   PetscReal E;
574c4762a1bSJed Brown } EulerNode;
575c4762a1bSJed Brown typedef union {
576c4762a1bSJed Brown   EulerNode eulernode;
577c4762a1bSJed Brown   PetscReal vals[DIM+2];
578c4762a1bSJed Brown } EulerNodeUnion;
579c4762a1bSJed Brown typedef PetscErrorCode (*EquationOfState)(const PetscReal*, const EulerNode*, PetscReal*);
580c4762a1bSJed Brown typedef struct {
581c4762a1bSJed Brown   EulerType       type;
582c4762a1bSJed Brown   PetscReal       pars[EULER_PAR_SIZE];
583c4762a1bSJed Brown   EquationOfState sound;
584c4762a1bSJed Brown   struct {
585c4762a1bSJed Brown     PetscInt Density;
586c4762a1bSJed Brown     PetscInt Momentum;
587c4762a1bSJed Brown     PetscInt Energy;
588c4762a1bSJed Brown     PetscInt Pressure;
589c4762a1bSJed Brown     PetscInt Speed;
590c4762a1bSJed Brown   } monitor;
591c4762a1bSJed Brown } Physics_Euler;
592c4762a1bSJed Brown 
593c4762a1bSJed Brown static const struct FieldDescription PhysicsFields_Euler[] = {{"Density",1},{"Momentum",DIM},{"Energy",1},{NULL,0}};
594c4762a1bSJed Brown 
595c4762a1bSJed Brown /* initial condition */
596c4762a1bSJed Brown int initLinearWave(EulerNode *ux, const PetscReal gamma, const PetscReal coord[], const PetscReal Lx);
597c4762a1bSJed Brown static PetscErrorCode PhysicsSolution_Euler(Model mod, PetscReal time, const PetscReal *x, PetscScalar *u, void *ctx)
598c4762a1bSJed Brown {
599c4762a1bSJed Brown   PetscInt i;
600c4762a1bSJed Brown   Physics         phys = (Physics)ctx;
601c4762a1bSJed Brown   Physics_Euler   *eu  = (Physics_Euler*)phys->data;
602c4762a1bSJed Brown   EulerNode       *uu  = (EulerNode*)u;
603c4762a1bSJed Brown   PetscReal        p0,gamma,c;
604c4762a1bSJed Brown   PetscFunctionBeginUser;
6052c71b3e2SJacob Faibussowitsch   PetscCheckFalse(time != 0.0,mod->comm,PETSC_ERR_SUP,"No solution known for time %g",(double)time);
606c4762a1bSJed Brown 
607c4762a1bSJed Brown   for (i=0; i<DIM; i++) uu->ru[i] = 0.0; /* zero out initial velocity */
608c4762a1bSJed Brown   /* set E and rho */
609c4762a1bSJed Brown   gamma = eu->pars[EULER_PAR_GAMMA];
610c4762a1bSJed Brown 
611c4762a1bSJed Brown   if (eu->type==EULER_IV_SHOCK || eu->type==EULER_SS_SHOCK) {
612c4762a1bSJed Brown     /******************* Euler Density Shock ********************/
613c4762a1bSJed Brown     /* On initial-value and self-similar solutions of the compressible Euler equations */
614c4762a1bSJed Brown     /* Ravi Samtaney and D. I. Pullin */
615c4762a1bSJed Brown     /* Phys. Fluids 8, 2650 (1996); http://dx.doi.org/10.1063/1.869050 */
616c4762a1bSJed Brown     /* initial conditions 1: left of shock, 0: left of discontinuity 2: right of discontinuity,  */
617c4762a1bSJed Brown     p0 = 1.;
618c4762a1bSJed Brown     if (x[0] < 0.0 + x[1]*eu->pars[EULER_PAR_ITANA]) {
619c4762a1bSJed Brown       if (x[0] < mod->bounds[0]*0.5) { /* left of shock (1) */
620c4762a1bSJed Brown         PetscReal amach,rho,press,gas1,p1;
621c4762a1bSJed Brown         amach = eu->pars[EULER_PAR_AMACH];
622c4762a1bSJed Brown         rho = 1.;
623c4762a1bSJed Brown         press = p0;
624c4762a1bSJed Brown         p1 = press*(1.0+2.0*gamma/(gamma+1.0)*(amach*amach-1.0));
625c4762a1bSJed Brown         gas1 = (gamma-1.0)/(gamma+1.0);
626c4762a1bSJed Brown         uu->r = rho*(p1/press+gas1)/(gas1*p1/press+1.0);
627c4762a1bSJed Brown         uu->ru[0]   = ((uu->r - rho)*PetscSqrtReal(gamma*press/rho)*amach);
628c4762a1bSJed Brown         uu->E = p1/(gamma-1.0) + .5/uu->r*uu->ru[0]*uu->ru[0];
629c4762a1bSJed Brown       }
630c4762a1bSJed Brown       else { /* left of discontinuity (0) */
631c4762a1bSJed Brown         uu->r = 1.; /* rho = 1 */
632c4762a1bSJed Brown         uu->E = p0/(gamma-1.0);
633c4762a1bSJed Brown       }
634c4762a1bSJed Brown     }
635c4762a1bSJed Brown     else { /* right of discontinuity (2) */
636c4762a1bSJed Brown       uu->r = eu->pars[EULER_PAR_RHOR];
637c4762a1bSJed Brown       uu->E = p0/(gamma-1.0);
638c4762a1bSJed Brown     }
639c4762a1bSJed Brown   }
640c4762a1bSJed Brown   else if (eu->type==EULER_SHOCK_TUBE) {
641c4762a1bSJed Brown     /* 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. */
642c4762a1bSJed Brown     if (x[0] < 0.0) {
643c4762a1bSJed Brown       uu->r = 8.;
644c4762a1bSJed Brown       uu->E = 10./(gamma-1.);
645c4762a1bSJed Brown     }
646c4762a1bSJed Brown     else {
647c4762a1bSJed Brown       uu->r = 1.;
648c4762a1bSJed Brown       uu->E = 1./(gamma-1.);
649c4762a1bSJed Brown     }
650c4762a1bSJed Brown   }
651c4762a1bSJed Brown   else if (eu->type==EULER_LINEAR_WAVE) {
652c4762a1bSJed Brown     initLinearWave( uu, gamma, x, mod->bounds[1] - mod->bounds[0]);
653c4762a1bSJed Brown   }
65498921bdaSJacob Faibussowitsch   else SETERRQ(mod->comm,PETSC_ERR_SUP,"Unknown type %d",eu->type);
655c4762a1bSJed Brown 
656c4762a1bSJed Brown   /* set phys->maxspeed: (mod->maxspeed = phys->maxspeed) in main; */
657c4762a1bSJed Brown   eu->sound(&gamma,uu,&c);
658c4762a1bSJed Brown   c = (uu->ru[0]/uu->r) + c;
659c4762a1bSJed Brown   if (c > phys->maxspeed) phys->maxspeed = c;
660c4762a1bSJed Brown 
661c4762a1bSJed Brown   PetscFunctionReturn(0);
662c4762a1bSJed Brown }
663c4762a1bSJed Brown 
664c4762a1bSJed Brown static PetscErrorCode Pressure_PG(const PetscReal gamma,const EulerNode *x,PetscReal *p)
665c4762a1bSJed Brown {
666c4762a1bSJed Brown   PetscReal ru2;
667c4762a1bSJed Brown 
668c4762a1bSJed Brown   PetscFunctionBeginUser;
669c4762a1bSJed Brown   ru2  = DotDIMReal(x->ru,x->ru);
670c4762a1bSJed Brown   (*p)=(x->E - 0.5*ru2/x->r)*(gamma - 1.0); /* (E - rho V^2/2)(gamma-1) = e rho (gamma-1) */
671c4762a1bSJed Brown   PetscFunctionReturn(0);
672c4762a1bSJed Brown }
673c4762a1bSJed Brown 
674c4762a1bSJed Brown static PetscErrorCode SpeedOfSound_PG(const PetscReal *gamma, const EulerNode *x, PetscReal *c)
675c4762a1bSJed Brown {
676c4762a1bSJed Brown   PetscReal p;
677c4762a1bSJed Brown 
678c4762a1bSJed Brown   PetscFunctionBeginUser;
679c4762a1bSJed Brown   Pressure_PG(*gamma,x,&p);
6802c71b3e2SJacob Faibussowitsch   PetscCheckFalse(p<0.,PETSC_COMM_WORLD,PETSC_ERR_SUP,"negative pressure time %g -- NEED TO FIX!!!!!!",(double) p);
681c4762a1bSJed Brown   /* pars[EULER_PAR_GAMMA] = heat capacity ratio */
682c4762a1bSJed Brown   (*c)=PetscSqrtReal(*gamma * p / x->r);
683c4762a1bSJed Brown   PetscFunctionReturn(0);
684c4762a1bSJed Brown }
685c4762a1bSJed Brown 
686c4762a1bSJed Brown /*
687c4762a1bSJed Brown  * x = (rho,rho*(u_1),...,rho*e)^T
688c4762a1bSJed Brown  * x_t+div(f_1(x))+...+div(f_DIM(x)) = 0
689c4762a1bSJed Brown  *
690c4762a1bSJed Brown  * f_i(x) = u_i*x+(0,0,...,p,...,p*u_i)^T
691c4762a1bSJed Brown  *
692c4762a1bSJed Brown  */
693c4762a1bSJed Brown static PetscErrorCode EulerFlux(Physics phys,const PetscReal *n,const EulerNode *x,EulerNode *f)
694c4762a1bSJed Brown {
695c4762a1bSJed Brown   Physics_Euler *eu = (Physics_Euler*)phys->data;
696c4762a1bSJed Brown   PetscReal     nu,p;
697c4762a1bSJed Brown   PetscInt      i;
698c4762a1bSJed Brown 
699c4762a1bSJed Brown   PetscFunctionBeginUser;
700c4762a1bSJed Brown   Pressure_PG(eu->pars[EULER_PAR_GAMMA],x,&p);
701c4762a1bSJed Brown   nu = DotDIMReal(x->ru,n);
702c4762a1bSJed Brown   f->r = nu;   /* A rho u */
703c4762a1bSJed Brown   nu /= x->r;  /* A u */
704c4762a1bSJed Brown   for (i=0; i<DIM; i++) f->ru[i] = nu * x->ru[i] + n[i]*p;  /* r u^2 + p */
705c4762a1bSJed Brown   f->E = nu * (x->E + p); /* u(e+p) */
706c4762a1bSJed Brown   PetscFunctionReturn(0);
707c4762a1bSJed Brown }
708c4762a1bSJed Brown 
709c4762a1bSJed Brown /* PetscReal* => EulerNode* conversion */
710c4762a1bSJed Brown static PetscErrorCode PhysicsBoundary_Euler_Wall(PetscReal time, const PetscReal *c, const PetscReal *n, const PetscScalar *a_xI, PetscScalar *a_xG, void *ctx)
711c4762a1bSJed Brown {
712c4762a1bSJed Brown   PetscInt    i;
713c4762a1bSJed Brown   const EulerNode *xI = (const EulerNode*)a_xI;
714c4762a1bSJed Brown   EulerNode       *xG = (EulerNode*)a_xG;
715c4762a1bSJed Brown   Physics         phys = (Physics)ctx;
716c4762a1bSJed Brown   Physics_Euler   *eu  = (Physics_Euler*)phys->data;
717c4762a1bSJed Brown   PetscFunctionBeginUser;
718c4762a1bSJed Brown   xG->r = xI->r;           /* ghost cell density - same */
719c4762a1bSJed Brown   xG->E = xI->E;           /* ghost cell energy - same */
720c4762a1bSJed Brown   if (n[1] != 0.) {        /* top and bottom */
721c4762a1bSJed Brown     xG->ru[0] =  xI->ru[0]; /* copy tang to wall */
722c4762a1bSJed Brown     xG->ru[1] = -xI->ru[1]; /* reflect perp to t/b wall */
723c4762a1bSJed Brown   }
724c4762a1bSJed Brown   else { /* sides */
725c4762a1bSJed Brown     for (i=0; i<DIM; i++) xG->ru[i] = xI->ru[i]; /* copy */
726c4762a1bSJed Brown   }
727c4762a1bSJed Brown   if (eu->type == EULER_LINEAR_WAVE) { /* debug */
728c4762a1bSJed Brown #if 0
729c4762a1bSJed Brown     PetscPrintf(PETSC_COMM_WORLD,"%s coord=%g,%g\n",PETSC_FUNCTION_NAME,c[0],c[1]);
730c4762a1bSJed Brown #endif
731c4762a1bSJed Brown   }
732c4762a1bSJed Brown   PetscFunctionReturn(0);
733c4762a1bSJed Brown }
734c4762a1bSJed Brown int godunovflux( const PetscScalar *ul, const PetscScalar *ur, PetscScalar *flux, const PetscReal *nn, const int *ndim, const PetscReal *gamma);
735c4762a1bSJed Brown /* PetscReal* => EulerNode* conversion */
736c4762a1bSJed Brown static void PhysicsRiemann_Euler_Godunov( PetscInt dim, PetscInt Nf, const PetscReal *qp, const PetscReal *n,
737c4762a1bSJed Brown                                           const PetscScalar *xL, const PetscScalar *xR, PetscInt numConstants, const PetscScalar constants[], PetscScalar *flux, Physics phys)
738c4762a1bSJed Brown {
739c4762a1bSJed Brown   Physics_Euler   *eu = (Physics_Euler*)phys->data;
740c4762a1bSJed Brown   PetscReal       cL,cR,speed,velL,velR,nn[DIM],s2;
741c4762a1bSJed Brown   PetscInt        i;
742c4762a1bSJed Brown   PetscErrorCode  ierr;
743c4762a1bSJed Brown   PetscFunctionBeginUser;
744c4762a1bSJed Brown 
745c4762a1bSJed Brown   for (i=0,s2=0.; i<DIM; i++) {
746c4762a1bSJed Brown     nn[i] = n[i];
747c4762a1bSJed Brown     s2 += nn[i]*nn[i];
748c4762a1bSJed Brown   }
749c4762a1bSJed Brown   s2 = PetscSqrtReal(s2); /* |n|_2 = sum(n^2)^1/2 */
750c4762a1bSJed Brown   for (i=0.; i<DIM; i++) nn[i] /= s2;
751c4762a1bSJed Brown   if (0) { /* Rusanov */
752c4762a1bSJed Brown     const EulerNode *uL = (const EulerNode*)xL,*uR = (const EulerNode*)xR;
753c4762a1bSJed Brown     EulerNodeUnion  fL,fR;
754c4762a1bSJed Brown     EulerFlux(phys,nn,uL,&(fL.eulernode));
755c4762a1bSJed Brown     EulerFlux(phys,nn,uR,&(fR.eulernode));
756c4762a1bSJed Brown     ierr = eu->sound(&eu->pars[EULER_PAR_GAMMA],uL,&cL);if (ierr) exit(13);
757c4762a1bSJed Brown     ierr = eu->sound(&eu->pars[EULER_PAR_GAMMA],uR,&cR);if (ierr) exit(14);
758c4762a1bSJed Brown     velL = DotDIMReal(uL->ru,nn)/uL->r;
759c4762a1bSJed Brown     velR = DotDIMReal(uR->ru,nn)/uR->r;
760c4762a1bSJed Brown     speed = PetscMax(velR + cR, velL + cL);
761c4762a1bSJed Brown     for (i=0; i<2+dim; i++) flux[i] = 0.5*((fL.vals[i]+fR.vals[i]) + speed*(xL[i] - xR[i]))*s2;
762c4762a1bSJed Brown   }
763c4762a1bSJed Brown   else {
764c4762a1bSJed Brown     int dim = DIM;
765c4762a1bSJed Brown     /* int iwave =  */
766c4762a1bSJed Brown     godunovflux(xL, xR, flux, nn, &dim, &eu->pars[EULER_PAR_GAMMA]);
767c4762a1bSJed Brown     for (i=0; i<2+dim; i++) flux[i] *= s2;
768c4762a1bSJed Brown   }
769c4762a1bSJed Brown   PetscFunctionReturnVoid();
770c4762a1bSJed Brown }
771c4762a1bSJed Brown 
772c4762a1bSJed Brown static PetscErrorCode PhysicsFunctional_Euler(Model mod,PetscReal time,const PetscReal *coord,const PetscScalar *xx,PetscReal *f,void *ctx)
773c4762a1bSJed Brown {
774c4762a1bSJed Brown   Physics         phys = (Physics)ctx;
775c4762a1bSJed Brown   Physics_Euler   *eu  = (Physics_Euler*)phys->data;
776c4762a1bSJed Brown   const EulerNode *x   = (const EulerNode*)xx;
777c4762a1bSJed Brown   PetscReal       p;
778c4762a1bSJed Brown 
779c4762a1bSJed Brown   PetscFunctionBeginUser;
780c4762a1bSJed Brown   f[eu->monitor.Density]  = x->r;
781c4762a1bSJed Brown   f[eu->monitor.Momentum] = NormDIM(x->ru);
782c4762a1bSJed Brown   f[eu->monitor.Energy]   = x->E;
783c4762a1bSJed Brown   f[eu->monitor.Speed]    = NormDIM(x->ru)/x->r;
784c4762a1bSJed Brown   Pressure_PG(eu->pars[EULER_PAR_GAMMA], x, &p);
785c4762a1bSJed Brown   f[eu->monitor.Pressure] = p;
786c4762a1bSJed Brown   PetscFunctionReturn(0);
787c4762a1bSJed Brown }
788c4762a1bSJed Brown 
78945480ffeSMatthew G. Knepley static PetscErrorCode SetUpBC_Euler(DM dm, PetscDS prob,Physics phys)
790c4762a1bSJed Brown {
791c4762a1bSJed Brown   PetscErrorCode  ierr;
792c4762a1bSJed Brown   Physics_Euler   *eu = (Physics_Euler *) phys->data;
79345480ffeSMatthew G. Knepley   DMLabel         label;
79445480ffeSMatthew G. Knepley 
795362febeeSStefano Zampini   PetscFunctionBeginUser;
79645480ffeSMatthew G. Knepley   ierr = DMGetLabel(dm, "Face Sets", &label);CHKERRQ(ierr);
797c4762a1bSJed Brown   if (eu->type == EULER_LINEAR_WAVE) {
798c4762a1bSJed Brown     const PetscInt wallids[] = {100,101};
79945480ffeSMatthew G. Knepley     ierr = PetscDSAddBoundary(prob, DM_BC_NATURAL_RIEMANN, "wall", label, ALEN(wallids), wallids, 0, 0, NULL, (void (*)(void)) PhysicsBoundary_Euler_Wall, NULL, phys, NULL);CHKERRQ(ierr);
800c4762a1bSJed Brown   }
801c4762a1bSJed Brown   else {
802c4762a1bSJed Brown     const PetscInt wallids[] = {100,101,200,300};
80345480ffeSMatthew G. Knepley     ierr = PetscDSAddBoundary(prob, DM_BC_NATURAL_RIEMANN, "wall", label, ALEN(wallids), wallids, 0, 0, NULL, (void (*)(void)) PhysicsBoundary_Euler_Wall, NULL, phys, NULL);CHKERRQ(ierr);
804c4762a1bSJed Brown   }
805c4762a1bSJed Brown   PetscFunctionReturn(0);
806c4762a1bSJed Brown }
807c4762a1bSJed Brown 
808c4762a1bSJed Brown static PetscErrorCode PhysicsCreate_Euler(Model mod,Physics phys,PetscOptionItems *PetscOptionsObject)
809c4762a1bSJed Brown {
810c4762a1bSJed Brown   Physics_Euler   *eu;
811c4762a1bSJed Brown   PetscErrorCode  ierr;
812c4762a1bSJed Brown 
813c4762a1bSJed Brown   PetscFunctionBeginUser;
814c4762a1bSJed Brown   phys->field_desc = PhysicsFields_Euler;
815c4762a1bSJed Brown   phys->riemann = (PetscRiemannFunc) PhysicsRiemann_Euler_Godunov;
816c4762a1bSJed Brown   ierr = PetscNew(&eu);CHKERRQ(ierr);
817c4762a1bSJed Brown   phys->data    = eu;
818c4762a1bSJed Brown   mod->setupbc = SetUpBC_Euler;
819c4762a1bSJed Brown   ierr = PetscOptionsHead(PetscOptionsObject,"Euler options");CHKERRQ(ierr);
820c4762a1bSJed Brown   {
821c4762a1bSJed Brown     PetscReal alpha;
822c4762a1bSJed Brown     char type[64] = "linear_wave";
823c4762a1bSJed Brown     PetscBool  is;
824c4762a1bSJed Brown     eu->pars[EULER_PAR_GAMMA] = 1.4;
825c4762a1bSJed Brown     eu->pars[EULER_PAR_AMACH] = 2.02;
826c4762a1bSJed Brown     eu->pars[EULER_PAR_RHOR] = 3.0;
827c4762a1bSJed Brown     eu->pars[EULER_PAR_ITANA] = 0.57735026918963; /* angle of Euler self similar (SS) shock */
828c4762a1bSJed Brown     ierr = PetscOptionsReal("-eu_gamma","Heat capacity ratio","",eu->pars[EULER_PAR_GAMMA],&eu->pars[EULER_PAR_GAMMA],NULL);CHKERRQ(ierr);
829c4762a1bSJed Brown     ierr = PetscOptionsReal("-eu_amach","Shock speed (Mach)","",eu->pars[EULER_PAR_AMACH],&eu->pars[EULER_PAR_AMACH],NULL);CHKERRQ(ierr);
830c4762a1bSJed Brown     ierr = PetscOptionsReal("-eu_rho2","Density right of discontinuity","",eu->pars[EULER_PAR_RHOR],&eu->pars[EULER_PAR_RHOR],NULL);CHKERRQ(ierr);
831c4762a1bSJed Brown     alpha = 60.;
832c4762a1bSJed Brown     ierr = PetscOptionsReal("-eu_alpha","Angle of discontinuity","",alpha,&alpha,NULL);CHKERRQ(ierr);
8332c71b3e2SJacob Faibussowitsch     PetscCheckFalse(alpha<=0. || alpha>90.,PETSC_COMM_WORLD,PETSC_ERR_SUP,"Alpha bust be > 0 and <= 90 (%g)",alpha);
834c4762a1bSJed Brown     eu->pars[EULER_PAR_ITANA] = 1./PetscTanReal( alpha * PETSC_PI / 180.0);
835c4762a1bSJed Brown     ierr = PetscOptionsString("-eu_type","Type of Euler test","",type,type,sizeof(type),NULL);CHKERRQ(ierr);
836c4762a1bSJed Brown     ierr = PetscStrcmp(type,"linear_wave", &is);CHKERRQ(ierr);
837c4762a1bSJed Brown     if (is) {
83830602db0SMatthew G. Knepley       /* Remember this should be periodic */
839c4762a1bSJed Brown       eu->type = EULER_LINEAR_WAVE;
840c4762a1bSJed Brown       ierr = PetscPrintf(PETSC_COMM_WORLD,"%s set Euler type: %s\n",PETSC_FUNCTION_NAME,"linear_wave");CHKERRQ(ierr);
841c4762a1bSJed Brown     }
842c4762a1bSJed Brown     else {
8432c71b3e2SJacob Faibussowitsch       PetscCheckFalse(DIM != 2,PETSC_COMM_WORLD,PETSC_ERR_SUP,"DIM must be 2 unless linear wave test %s",type);
844c4762a1bSJed Brown       ierr = PetscStrcmp(type,"iv_shock", &is);CHKERRQ(ierr);
845c4762a1bSJed Brown       if (is) {
846c4762a1bSJed Brown         eu->type = EULER_IV_SHOCK;
847c4762a1bSJed Brown         ierr = PetscPrintf(PETSC_COMM_WORLD,"%s set Euler type: %s\n",PETSC_FUNCTION_NAME,"iv_shock");CHKERRQ(ierr);
848c4762a1bSJed Brown       }
849c4762a1bSJed Brown       else {
850c4762a1bSJed Brown         ierr = PetscStrcmp(type,"ss_shock", &is);CHKERRQ(ierr);
851c4762a1bSJed Brown         if (is) {
852c4762a1bSJed Brown           eu->type = EULER_SS_SHOCK;
853c4762a1bSJed Brown           ierr = PetscPrintf(PETSC_COMM_WORLD,"%s set Euler type: %s\n",PETSC_FUNCTION_NAME,"ss_shock");CHKERRQ(ierr);
854c4762a1bSJed Brown         }
855c4762a1bSJed Brown         else {
856c4762a1bSJed Brown           ierr = PetscStrcmp(type,"shock_tube", &is);CHKERRQ(ierr);
857c4762a1bSJed Brown           if (is) eu->type = EULER_SHOCK_TUBE;
85898921bdaSJacob Faibussowitsch           else SETERRQ(PETSC_COMM_WORLD,PETSC_ERR_SUP,"Unknown Euler type %s",type);
859c4762a1bSJed Brown           ierr = PetscPrintf(PETSC_COMM_WORLD,"%s set Euler type: %s\n",PETSC_FUNCTION_NAME,"shock_tube");CHKERRQ(ierr);
860c4762a1bSJed Brown         }
861c4762a1bSJed Brown       }
862c4762a1bSJed Brown     }
863c4762a1bSJed Brown   }
864c4762a1bSJed Brown   ierr = PetscOptionsTail();CHKERRQ(ierr);
865c4762a1bSJed Brown   eu->sound = SpeedOfSound_PG;
866c4762a1bSJed Brown   phys->maxspeed = 0.; /* will get set in solution */
867c4762a1bSJed Brown   ierr = ModelSolutionSetDefault(mod,PhysicsSolution_Euler,phys);CHKERRQ(ierr);
868c4762a1bSJed Brown   ierr = ModelFunctionalRegister(mod,"Speed",&eu->monitor.Speed,PhysicsFunctional_Euler,phys);CHKERRQ(ierr);
869c4762a1bSJed Brown   ierr = ModelFunctionalRegister(mod,"Energy",&eu->monitor.Energy,PhysicsFunctional_Euler,phys);CHKERRQ(ierr);
870c4762a1bSJed Brown   ierr = ModelFunctionalRegister(mod,"Density",&eu->monitor.Density,PhysicsFunctional_Euler,phys);CHKERRQ(ierr);
871c4762a1bSJed Brown   ierr = ModelFunctionalRegister(mod,"Momentum",&eu->monitor.Momentum,PhysicsFunctional_Euler,phys);CHKERRQ(ierr);
872c4762a1bSJed Brown   ierr = ModelFunctionalRegister(mod,"Pressure",&eu->monitor.Pressure,PhysicsFunctional_Euler,phys);CHKERRQ(ierr);
873c4762a1bSJed Brown 
874c4762a1bSJed Brown   PetscFunctionReturn(0);
875c4762a1bSJed Brown }
876c4762a1bSJed Brown 
877c4762a1bSJed Brown static PetscErrorCode ErrorIndicator_Simple(PetscInt dim, PetscReal volume, PetscInt numComps, const PetscScalar u[], const PetscScalar grad[], PetscReal *error, void *ctx)
878c4762a1bSJed Brown {
879c4762a1bSJed Brown   PetscReal      err = 0.;
880c4762a1bSJed Brown   PetscInt       i, j;
881c4762a1bSJed Brown 
882c4762a1bSJed Brown   PetscFunctionBeginUser;
883c4762a1bSJed Brown   for (i = 0; i < numComps; i++) {
884c4762a1bSJed Brown     for (j = 0; j < dim; j++) {
885c4762a1bSJed Brown       err += PetscSqr(PetscRealPart(grad[i * dim + j]));
886c4762a1bSJed Brown     }
887c4762a1bSJed Brown   }
888c4762a1bSJed Brown   *error = volume * err;
889c4762a1bSJed Brown   PetscFunctionReturn(0);
890c4762a1bSJed Brown }
891c4762a1bSJed Brown 
892c4762a1bSJed Brown PetscErrorCode CreatePartitionVec(DM dm, DM *dmCell, Vec *partition)
893c4762a1bSJed Brown {
894c4762a1bSJed Brown   PetscSF        sfPoint;
895c4762a1bSJed Brown   PetscSection   coordSection;
896c4762a1bSJed Brown   Vec            coordinates;
897c4762a1bSJed Brown   PetscSection   sectionCell;
898c4762a1bSJed Brown   PetscScalar    *part;
899c4762a1bSJed Brown   PetscInt       cStart, cEnd, c;
900c4762a1bSJed Brown   PetscMPIInt    rank;
901c4762a1bSJed Brown   PetscErrorCode ierr;
902c4762a1bSJed Brown 
903c4762a1bSJed Brown   PetscFunctionBeginUser;
904c4762a1bSJed Brown   ierr = DMGetCoordinateSection(dm, &coordSection);CHKERRQ(ierr);
905c4762a1bSJed Brown   ierr = DMGetCoordinatesLocal(dm, &coordinates);CHKERRQ(ierr);
906c4762a1bSJed Brown   ierr = DMClone(dm, dmCell);CHKERRQ(ierr);
907c4762a1bSJed Brown   ierr = DMGetPointSF(dm, &sfPoint);CHKERRQ(ierr);
908c4762a1bSJed Brown   ierr = DMSetPointSF(*dmCell, sfPoint);CHKERRQ(ierr);
909c4762a1bSJed Brown   ierr = DMSetCoordinateSection(*dmCell, PETSC_DETERMINE, coordSection);CHKERRQ(ierr);
910c4762a1bSJed Brown   ierr = DMSetCoordinatesLocal(*dmCell, coordinates);CHKERRQ(ierr);
911ffc4695bSBarry Smith   ierr = MPI_Comm_rank(PetscObjectComm((PetscObject)dm), &rank);CHKERRMPI(ierr);
912c4762a1bSJed Brown   ierr = PetscSectionCreate(PetscObjectComm((PetscObject)dm), &sectionCell);CHKERRQ(ierr);
913c4762a1bSJed Brown   ierr = DMPlexGetHeightStratum(*dmCell, 0, &cStart, &cEnd);CHKERRQ(ierr);
914c4762a1bSJed Brown   ierr = PetscSectionSetChart(sectionCell, cStart, cEnd);CHKERRQ(ierr);
915c4762a1bSJed Brown   for (c = cStart; c < cEnd; ++c) {
916c4762a1bSJed Brown     ierr = PetscSectionSetDof(sectionCell, c, 1);CHKERRQ(ierr);
917c4762a1bSJed Brown   }
918c4762a1bSJed Brown   ierr = PetscSectionSetUp(sectionCell);CHKERRQ(ierr);
919c4762a1bSJed Brown   ierr = DMSetLocalSection(*dmCell, sectionCell);CHKERRQ(ierr);
920c4762a1bSJed Brown   ierr = PetscSectionDestroy(&sectionCell);CHKERRQ(ierr);
921c4762a1bSJed Brown   ierr = DMCreateLocalVector(*dmCell, partition);CHKERRQ(ierr);
922c4762a1bSJed Brown   ierr = PetscObjectSetName((PetscObject)*partition, "partition");CHKERRQ(ierr);
923c4762a1bSJed Brown   ierr = VecGetArray(*partition, &part);CHKERRQ(ierr);
924c4762a1bSJed Brown   for (c = cStart; c < cEnd; ++c) {
925c4762a1bSJed Brown     PetscScalar *p;
926c4762a1bSJed Brown 
927c4762a1bSJed Brown     ierr = DMPlexPointLocalRef(*dmCell, c, part, &p);CHKERRQ(ierr);
928c4762a1bSJed Brown     p[0] = rank;
929c4762a1bSJed Brown   }
930c4762a1bSJed Brown   ierr = VecRestoreArray(*partition, &part);CHKERRQ(ierr);
931c4762a1bSJed Brown   PetscFunctionReturn(0);
932c4762a1bSJed Brown }
933c4762a1bSJed Brown 
934c4762a1bSJed Brown PetscErrorCode CreateMassMatrix(DM dm, Vec *massMatrix, User user)
935c4762a1bSJed Brown {
9363e9753d6SMatthew G. Knepley   DM                plex, dmMass, dmFace, dmCell, dmCoord;
937c4762a1bSJed Brown   PetscSection      coordSection;
938c4762a1bSJed Brown   Vec               coordinates, facegeom, cellgeom;
939c4762a1bSJed Brown   PetscSection      sectionMass;
940c4762a1bSJed Brown   PetscScalar       *m;
941c4762a1bSJed Brown   const PetscScalar *fgeom, *cgeom, *coords;
942c4762a1bSJed Brown   PetscInt          vStart, vEnd, v;
943c4762a1bSJed Brown   PetscErrorCode    ierr;
944c4762a1bSJed Brown 
945c4762a1bSJed Brown   PetscFunctionBeginUser;
9463e9753d6SMatthew G. Knepley   ierr = DMConvert(dm, DMPLEX, &plex);CHKERRQ(ierr);
947c4762a1bSJed Brown   ierr = DMGetCoordinateSection(dm, &coordSection);CHKERRQ(ierr);
948c4762a1bSJed Brown   ierr = DMGetCoordinatesLocal(dm, &coordinates);CHKERRQ(ierr);
949c4762a1bSJed Brown   ierr = DMClone(dm, &dmMass);CHKERRQ(ierr);
950c4762a1bSJed Brown   ierr = DMSetCoordinateSection(dmMass, PETSC_DETERMINE, coordSection);CHKERRQ(ierr);
951c4762a1bSJed Brown   ierr = DMSetCoordinatesLocal(dmMass, coordinates);CHKERRQ(ierr);
952c4762a1bSJed Brown   ierr = PetscSectionCreate(PetscObjectComm((PetscObject)dm), &sectionMass);CHKERRQ(ierr);
953c4762a1bSJed Brown   ierr = DMPlexGetDepthStratum(dm, 0, &vStart, &vEnd);CHKERRQ(ierr);
954c4762a1bSJed Brown   ierr = PetscSectionSetChart(sectionMass, vStart, vEnd);CHKERRQ(ierr);
955c4762a1bSJed Brown   for (v = vStart; v < vEnd; ++v) {
956c4762a1bSJed Brown     PetscInt numFaces;
957c4762a1bSJed Brown 
958c4762a1bSJed Brown     ierr = DMPlexGetSupportSize(dmMass, v, &numFaces);CHKERRQ(ierr);
959c4762a1bSJed Brown     ierr = PetscSectionSetDof(sectionMass, v, numFaces*numFaces);CHKERRQ(ierr);
960c4762a1bSJed Brown   }
961c4762a1bSJed Brown   ierr = PetscSectionSetUp(sectionMass);CHKERRQ(ierr);
962c4762a1bSJed Brown   ierr = DMSetLocalSection(dmMass, sectionMass);CHKERRQ(ierr);
963c4762a1bSJed Brown   ierr = PetscSectionDestroy(&sectionMass);CHKERRQ(ierr);
964c4762a1bSJed Brown   ierr = DMGetLocalVector(dmMass, massMatrix);CHKERRQ(ierr);
965c4762a1bSJed Brown   ierr = VecGetArray(*massMatrix, &m);CHKERRQ(ierr);
9663e9753d6SMatthew G. Knepley   ierr = DMPlexGetGeometryFVM(plex, &facegeom, &cellgeom, NULL);CHKERRQ(ierr);
967c4762a1bSJed Brown   ierr = VecGetDM(facegeom, &dmFace);CHKERRQ(ierr);
968c4762a1bSJed Brown   ierr = VecGetArrayRead(facegeom, &fgeom);CHKERRQ(ierr);
969c4762a1bSJed Brown   ierr = VecGetDM(cellgeom, &dmCell);CHKERRQ(ierr);
970c4762a1bSJed Brown   ierr = VecGetArrayRead(cellgeom, &cgeom);CHKERRQ(ierr);
971c4762a1bSJed Brown   ierr = DMGetCoordinateDM(dm, &dmCoord);CHKERRQ(ierr);
972c4762a1bSJed Brown   ierr = VecGetArrayRead(coordinates, &coords);CHKERRQ(ierr);
973c4762a1bSJed Brown   for (v = vStart; v < vEnd; ++v) {
974c4762a1bSJed Brown     const PetscInt        *faces;
975c4762a1bSJed Brown     PetscFVFaceGeom       *fgA, *fgB, *cg;
976c4762a1bSJed Brown     PetscScalar           *vertex;
977c4762a1bSJed Brown     PetscInt               numFaces, sides[2], f, g;
978c4762a1bSJed Brown 
979c4762a1bSJed Brown     ierr = DMPlexPointLocalRead(dmCoord, v, coords, &vertex);CHKERRQ(ierr);
980c4762a1bSJed Brown     ierr = DMPlexGetSupportSize(dmMass, v, &numFaces);CHKERRQ(ierr);
981c4762a1bSJed Brown     ierr = DMPlexGetSupport(dmMass, v, &faces);CHKERRQ(ierr);
982c4762a1bSJed Brown     for (f = 0; f < numFaces; ++f) {
983c4762a1bSJed Brown       sides[0] = faces[f];
984c4762a1bSJed Brown       ierr = DMPlexPointLocalRead(dmFace, faces[f], fgeom, &fgA);CHKERRQ(ierr);
985c4762a1bSJed Brown       for (g = 0; g < numFaces; ++g) {
986c4762a1bSJed Brown         const PetscInt *cells = NULL;
987c4762a1bSJed Brown         PetscReal      area   = 0.0;
988c4762a1bSJed Brown         PetscInt       numCells;
989c4762a1bSJed Brown 
990c4762a1bSJed Brown         sides[1] = faces[g];
991c4762a1bSJed Brown         ierr = DMPlexPointLocalRead(dmFace, faces[g], fgeom, &fgB);CHKERRQ(ierr);
992c4762a1bSJed Brown         ierr = DMPlexGetJoin(dmMass, 2, sides, &numCells, &cells);CHKERRQ(ierr);
9932c71b3e2SJacob Faibussowitsch         PetscCheckFalse(numCells != 1,PETSC_COMM_SELF, PETSC_ERR_LIB, "Invalid join for faces");
994c4762a1bSJed Brown         ierr = DMPlexPointLocalRead(dmCell, cells[0], cgeom, &cg);CHKERRQ(ierr);
995c4762a1bSJed Brown         area += PetscAbsScalar((vertex[0] - cg->centroid[0])*(fgA->centroid[1] - cg->centroid[1]) - (vertex[1] - cg->centroid[1])*(fgA->centroid[0] - cg->centroid[0]));
996c4762a1bSJed Brown         area += PetscAbsScalar((vertex[0] - cg->centroid[0])*(fgB->centroid[1] - cg->centroid[1]) - (vertex[1] - cg->centroid[1])*(fgB->centroid[0] - cg->centroid[0]));
997c4762a1bSJed Brown         m[f*numFaces+g] = Dot2Real(fgA->normal, fgB->normal)*area*0.5;
998c4762a1bSJed Brown         ierr = DMPlexRestoreJoin(dmMass, 2, sides, &numCells, &cells);CHKERRQ(ierr);
999c4762a1bSJed Brown       }
1000c4762a1bSJed Brown     }
1001c4762a1bSJed Brown   }
1002c4762a1bSJed Brown   ierr = VecRestoreArrayRead(facegeom, &fgeom);CHKERRQ(ierr);
1003c4762a1bSJed Brown   ierr = VecRestoreArrayRead(cellgeom, &cgeom);CHKERRQ(ierr);
1004c4762a1bSJed Brown   ierr = VecRestoreArrayRead(coordinates, &coords);CHKERRQ(ierr);
1005c4762a1bSJed Brown   ierr = VecRestoreArray(*massMatrix, &m);CHKERRQ(ierr);
1006c4762a1bSJed Brown   ierr = DMDestroy(&dmMass);CHKERRQ(ierr);
10073e9753d6SMatthew G. Knepley   ierr = DMDestroy(&plex);CHKERRQ(ierr);
1008c4762a1bSJed Brown   PetscFunctionReturn(0);
1009c4762a1bSJed Brown }
1010c4762a1bSJed Brown 
1011c4762a1bSJed Brown /* Behavior will be different for multi-physics or when using non-default boundary conditions */
1012c4762a1bSJed Brown static PetscErrorCode ModelSolutionSetDefault(Model mod,SolutionFunction func,void *ctx)
1013c4762a1bSJed Brown {
1014c4762a1bSJed Brown   PetscFunctionBeginUser;
1015c4762a1bSJed Brown   mod->solution    = func;
1016c4762a1bSJed Brown   mod->solutionctx = ctx;
1017c4762a1bSJed Brown   PetscFunctionReturn(0);
1018c4762a1bSJed Brown }
1019c4762a1bSJed Brown 
1020c4762a1bSJed Brown static PetscErrorCode ModelFunctionalRegister(Model mod,const char *name,PetscInt *offset,FunctionalFunction func,void *ctx)
1021c4762a1bSJed Brown {
1022c4762a1bSJed Brown   PetscErrorCode ierr;
1023c4762a1bSJed Brown   FunctionalLink link,*ptr;
1024c4762a1bSJed Brown   PetscInt       lastoffset = -1;
1025c4762a1bSJed Brown 
1026c4762a1bSJed Brown   PetscFunctionBeginUser;
1027c4762a1bSJed Brown   for (ptr=&mod->functionalRegistry; *ptr; ptr = &(*ptr)->next) lastoffset = (*ptr)->offset;
1028c4762a1bSJed Brown   ierr         = PetscNew(&link);CHKERRQ(ierr);
1029c4762a1bSJed Brown   ierr         = PetscStrallocpy(name,&link->name);CHKERRQ(ierr);
1030c4762a1bSJed Brown   link->offset = lastoffset + 1;
1031c4762a1bSJed Brown   link->func   = func;
1032c4762a1bSJed Brown   link->ctx    = ctx;
1033c4762a1bSJed Brown   link->next   = NULL;
1034c4762a1bSJed Brown   *ptr         = link;
1035c4762a1bSJed Brown   *offset      = link->offset;
1036c4762a1bSJed Brown   PetscFunctionReturn(0);
1037c4762a1bSJed Brown }
1038c4762a1bSJed Brown 
1039c4762a1bSJed Brown static PetscErrorCode ModelFunctionalSetFromOptions(Model mod,PetscOptionItems *PetscOptionsObject)
1040c4762a1bSJed Brown {
1041c4762a1bSJed Brown   PetscErrorCode ierr;
1042c4762a1bSJed Brown   PetscInt       i,j;
1043c4762a1bSJed Brown   FunctionalLink link;
1044c4762a1bSJed Brown   char           *names[256];
1045c4762a1bSJed Brown 
1046c4762a1bSJed Brown   PetscFunctionBeginUser;
1047c4762a1bSJed Brown   mod->numMonitored = ALEN(names);
1048c4762a1bSJed Brown   ierr = PetscOptionsStringArray("-monitor","list of functionals to monitor","",names,&mod->numMonitored,NULL);CHKERRQ(ierr);
1049c4762a1bSJed Brown   /* Create list of functionals that will be computed somehow */
1050c4762a1bSJed Brown   ierr = PetscMalloc1(mod->numMonitored,&mod->functionalMonitored);CHKERRQ(ierr);
1051c4762a1bSJed Brown   /* Create index of calls that we will have to make to compute these functionals (over-allocation in general). */
1052c4762a1bSJed Brown   ierr = PetscMalloc1(mod->numMonitored,&mod->functionalCall);CHKERRQ(ierr);
1053c4762a1bSJed Brown   mod->numCall = 0;
1054c4762a1bSJed Brown   for (i=0; i<mod->numMonitored; i++) {
1055c4762a1bSJed Brown     for (link=mod->functionalRegistry; link; link=link->next) {
1056c4762a1bSJed Brown       PetscBool match;
1057c4762a1bSJed Brown       ierr = PetscStrcasecmp(names[i],link->name,&match);CHKERRQ(ierr);
1058c4762a1bSJed Brown       if (match) break;
1059c4762a1bSJed Brown     }
10602c71b3e2SJacob Faibussowitsch     PetscCheckFalse(!link,mod->comm,PETSC_ERR_USER,"No known functional '%s'",names[i]);
1061c4762a1bSJed Brown     mod->functionalMonitored[i] = link;
1062c4762a1bSJed Brown     for (j=0; j<i; j++) {
1063c4762a1bSJed Brown       if (mod->functionalCall[j]->func == link->func && mod->functionalCall[j]->ctx == link->ctx) goto next_name;
1064c4762a1bSJed Brown     }
1065c4762a1bSJed Brown     mod->functionalCall[mod->numCall++] = link; /* Just points to the first link using the result. There may be more results. */
1066c4762a1bSJed Brown next_name:
1067c4762a1bSJed Brown     ierr = PetscFree(names[i]);CHKERRQ(ierr);
1068c4762a1bSJed Brown   }
1069c4762a1bSJed Brown 
1070c4762a1bSJed Brown   /* Find out the maximum index of any functional computed by a function we will be calling (even if we are not using it) */
1071c4762a1bSJed Brown   mod->maxComputed = -1;
1072c4762a1bSJed Brown   for (link=mod->functionalRegistry; link; link=link->next) {
1073c4762a1bSJed Brown     for (i=0; i<mod->numCall; i++) {
1074c4762a1bSJed Brown       FunctionalLink call = mod->functionalCall[i];
1075c4762a1bSJed Brown       if (link->func == call->func && link->ctx == call->ctx) {
1076c4762a1bSJed Brown         mod->maxComputed = PetscMax(mod->maxComputed,link->offset);
1077c4762a1bSJed Brown       }
1078c4762a1bSJed Brown     }
1079c4762a1bSJed Brown   }
1080c4762a1bSJed Brown   PetscFunctionReturn(0);
1081c4762a1bSJed Brown }
1082c4762a1bSJed Brown 
1083c4762a1bSJed Brown static PetscErrorCode FunctionalLinkDestroy(FunctionalLink *link)
1084c4762a1bSJed Brown {
1085c4762a1bSJed Brown   PetscErrorCode ierr;
1086c4762a1bSJed Brown   FunctionalLink l,next;
1087c4762a1bSJed Brown 
1088c4762a1bSJed Brown   PetscFunctionBeginUser;
1089c4762a1bSJed Brown   if (!link) PetscFunctionReturn(0);
1090c4762a1bSJed Brown   l     = *link;
1091c4762a1bSJed Brown   *link = NULL;
1092c4762a1bSJed Brown   for (; l; l=next) {
1093c4762a1bSJed Brown     next = l->next;
1094c4762a1bSJed Brown     ierr = PetscFree(l->name);CHKERRQ(ierr);
1095c4762a1bSJed Brown     ierr = PetscFree(l);CHKERRQ(ierr);
1096c4762a1bSJed Brown   }
1097c4762a1bSJed Brown   PetscFunctionReturn(0);
1098c4762a1bSJed Brown }
1099c4762a1bSJed Brown 
1100c4762a1bSJed Brown /* put the solution callback into a functional callback */
1101c4762a1bSJed Brown static PetscErrorCode SolutionFunctional(PetscInt dim, PetscReal time, const PetscReal x[], PetscInt Nf, PetscScalar *u, void *modctx)
1102c4762a1bSJed Brown {
1103c4762a1bSJed Brown   Model          mod;
1104c4762a1bSJed Brown   PetscErrorCode ierr;
1105c4762a1bSJed Brown   PetscFunctionBegin;
1106c4762a1bSJed Brown   mod  = (Model) modctx;
1107c4762a1bSJed Brown   ierr = (*mod->solution)(mod, time, x, u, mod->solutionctx);CHKERRQ(ierr);
1108c4762a1bSJed Brown   PetscFunctionReturn(0);
1109c4762a1bSJed Brown }
1110c4762a1bSJed Brown 
1111c4762a1bSJed Brown PetscErrorCode SetInitialCondition(DM dm, Vec X, User user)
1112c4762a1bSJed Brown {
1113c4762a1bSJed Brown   PetscErrorCode     (*func[1]) (PetscInt dim, PetscReal time, const PetscReal x[], PetscInt Nf, PetscScalar *u, void *ctx);
1114c4762a1bSJed Brown   void               *ctx[1];
1115c4762a1bSJed Brown   Model              mod = user->model;
1116c4762a1bSJed Brown   PetscErrorCode     ierr;
1117c4762a1bSJed Brown 
1118c4762a1bSJed Brown   PetscFunctionBeginUser;
1119c4762a1bSJed Brown   func[0] = SolutionFunctional;
1120c4762a1bSJed Brown   ctx[0]  = (void *) mod;
1121c4762a1bSJed Brown   ierr    = DMProjectFunction(dm,0.0,func,ctx,INSERT_ALL_VALUES,X);CHKERRQ(ierr);
1122c4762a1bSJed Brown   PetscFunctionReturn(0);
1123c4762a1bSJed Brown }
1124c4762a1bSJed Brown 
1125c4762a1bSJed Brown static PetscErrorCode OutputVTK(DM dm, const char *filename, PetscViewer *viewer)
1126c4762a1bSJed Brown {
1127c4762a1bSJed Brown   PetscErrorCode ierr;
1128c4762a1bSJed Brown 
1129c4762a1bSJed Brown   PetscFunctionBeginUser;
1130c4762a1bSJed Brown   ierr = PetscViewerCreate(PetscObjectComm((PetscObject)dm), viewer);CHKERRQ(ierr);
1131c4762a1bSJed Brown   ierr = PetscViewerSetType(*viewer, PETSCVIEWERVTK);CHKERRQ(ierr);
1132c4762a1bSJed Brown   ierr = PetscViewerFileSetName(*viewer, filename);CHKERRQ(ierr);
1133c4762a1bSJed Brown   PetscFunctionReturn(0);
1134c4762a1bSJed Brown }
1135c4762a1bSJed Brown 
1136c4762a1bSJed Brown static PetscErrorCode MonitorVTK(TS ts,PetscInt stepnum,PetscReal time,Vec X,void *ctx)
1137c4762a1bSJed Brown {
1138c4762a1bSJed Brown   User           user = (User)ctx;
11393e9753d6SMatthew G. Knepley   DM             dm, plex;
1140c4762a1bSJed Brown   PetscViewer    viewer;
1141c4762a1bSJed Brown   char           filename[PETSC_MAX_PATH_LEN],*ftable = NULL;
1142c4762a1bSJed Brown   PetscReal      xnorm;
1143c4762a1bSJed Brown   PetscErrorCode ierr;
1144c4762a1bSJed Brown 
1145c4762a1bSJed Brown   PetscFunctionBeginUser;
1146c4762a1bSJed Brown   ierr = PetscObjectSetName((PetscObject) X, "u");CHKERRQ(ierr);
1147c4762a1bSJed Brown   ierr = VecGetDM(X,&dm);CHKERRQ(ierr);
1148c4762a1bSJed Brown   ierr = VecNorm(X,NORM_INFINITY,&xnorm);CHKERRQ(ierr);
1149c4762a1bSJed Brown 
1150c4762a1bSJed Brown   if (stepnum >= 0) {
1151c4762a1bSJed Brown     stepnum += user->monitorStepOffset;
1152c4762a1bSJed Brown   }
1153c4762a1bSJed Brown   if (stepnum >= 0) {           /* No summary for final time */
1154c4762a1bSJed Brown     Model             mod = user->model;
11553e9753d6SMatthew G. Knepley     Vec               cellgeom;
1156c4762a1bSJed Brown     PetscInt          c,cStart,cEnd,fcount,i;
1157c4762a1bSJed Brown     size_t            ftableused,ftablealloc;
1158c4762a1bSJed Brown     const PetscScalar *cgeom,*x;
1159c4762a1bSJed Brown     DM                dmCell;
1160c4762a1bSJed Brown     DMLabel           vtkLabel;
1161c4762a1bSJed Brown     PetscReal         *fmin,*fmax,*fintegral,*ftmp;
11623e9753d6SMatthew G. Knepley 
11633e9753d6SMatthew G. Knepley     ierr = DMConvert(dm, DMPLEX, &plex);CHKERRQ(ierr);
11643e9753d6SMatthew G. Knepley     ierr = DMPlexGetGeometryFVM(plex, NULL, &cellgeom, NULL);CHKERRQ(ierr);
1165c4762a1bSJed Brown     fcount = mod->maxComputed+1;
1166c4762a1bSJed Brown     ierr   = PetscMalloc4(fcount,&fmin,fcount,&fmax,fcount,&fintegral,fcount,&ftmp);CHKERRQ(ierr);
1167c4762a1bSJed Brown     for (i=0; i<fcount; i++) {
1168c4762a1bSJed Brown       fmin[i]      = PETSC_MAX_REAL;
1169c4762a1bSJed Brown       fmax[i]      = PETSC_MIN_REAL;
1170c4762a1bSJed Brown       fintegral[i] = 0;
1171c4762a1bSJed Brown     }
1172c4762a1bSJed Brown     ierr = VecGetDM(cellgeom,&dmCell);CHKERRQ(ierr);
117354fcfd0cSMatthew G. Knepley     ierr = DMPlexGetSimplexOrBoxCells(dmCell,0,&cStart,&cEnd);CHKERRQ(ierr);
1174c4762a1bSJed Brown     ierr = VecGetArrayRead(cellgeom,&cgeom);CHKERRQ(ierr);
1175c4762a1bSJed Brown     ierr = VecGetArrayRead(X,&x);CHKERRQ(ierr);
1176c4762a1bSJed Brown     ierr = DMGetLabel(dm,"vtk",&vtkLabel);CHKERRQ(ierr);
1177c4762a1bSJed Brown     for (c = cStart; c < cEnd; ++c) {
1178c4762a1bSJed Brown       PetscFVCellGeom       *cg;
1179c4762a1bSJed Brown       const PetscScalar     *cx    = NULL;
1180c4762a1bSJed Brown       PetscInt              vtkVal = 0;
1181c4762a1bSJed Brown 
1182c4762a1bSJed Brown       /* not that these two routines as currently implemented work for any dm with a
1183c4762a1bSJed Brown        * localSection/globalSection */
1184c4762a1bSJed Brown       ierr = DMPlexPointLocalRead(dmCell,c,cgeom,&cg);CHKERRQ(ierr);
1185c4762a1bSJed Brown       ierr = DMPlexPointGlobalRead(dm,c,x,&cx);CHKERRQ(ierr);
1186c4762a1bSJed Brown       if (vtkLabel) {ierr = DMLabelGetValue(vtkLabel,c,&vtkVal);CHKERRQ(ierr);}
1187c4762a1bSJed Brown       if (!vtkVal || !cx) continue;        /* ghost, or not a global cell */
1188c4762a1bSJed Brown       for (i=0; i<mod->numCall; i++) {
1189c4762a1bSJed Brown         FunctionalLink flink = mod->functionalCall[i];
1190c4762a1bSJed Brown         ierr = (*flink->func)(mod,time,cg->centroid,cx,ftmp,flink->ctx);CHKERRQ(ierr);
1191c4762a1bSJed Brown       }
1192c4762a1bSJed Brown       for (i=0; i<fcount; i++) {
1193c4762a1bSJed Brown         fmin[i]       = PetscMin(fmin[i],ftmp[i]);
1194c4762a1bSJed Brown         fmax[i]       = PetscMax(fmax[i],ftmp[i]);
1195c4762a1bSJed Brown         fintegral[i] += cg->volume * ftmp[i];
1196c4762a1bSJed Brown       }
1197c4762a1bSJed Brown     }
1198c4762a1bSJed Brown     ierr = VecRestoreArrayRead(cellgeom,&cgeom);CHKERRQ(ierr);
1199c4762a1bSJed Brown     ierr = VecRestoreArrayRead(X,&x);CHKERRQ(ierr);
12003e9753d6SMatthew G. Knepley     ierr = DMDestroy(&plex);CHKERRQ(ierr);
1201ffc4695bSBarry Smith     ierr = MPI_Allreduce(MPI_IN_PLACE,fmin,fcount,MPIU_REAL,MPIU_MIN,PetscObjectComm((PetscObject)ts));CHKERRMPI(ierr);
1202ffc4695bSBarry Smith     ierr = MPI_Allreduce(MPI_IN_PLACE,fmax,fcount,MPIU_REAL,MPIU_MAX,PetscObjectComm((PetscObject)ts));CHKERRMPI(ierr);
1203ffc4695bSBarry Smith     ierr = MPI_Allreduce(MPI_IN_PLACE,fintegral,fcount,MPIU_REAL,MPIU_SUM,PetscObjectComm((PetscObject)ts));CHKERRMPI(ierr);
1204c4762a1bSJed Brown 
1205c4762a1bSJed Brown     ftablealloc = fcount * 100;
1206c4762a1bSJed Brown     ftableused  = 0;
1207c4762a1bSJed Brown     ierr        = PetscMalloc1(ftablealloc,&ftable);CHKERRQ(ierr);
1208c4762a1bSJed Brown     for (i=0; i<mod->numMonitored; i++) {
1209c4762a1bSJed Brown       size_t         countused;
1210c4762a1bSJed Brown       char           buffer[256],*p;
1211c4762a1bSJed Brown       FunctionalLink flink = mod->functionalMonitored[i];
1212c4762a1bSJed Brown       PetscInt       id    = flink->offset;
1213c4762a1bSJed Brown       if (i % 3) {
1214c4762a1bSJed Brown         ierr = PetscArraycpy(buffer,"  ",2);CHKERRQ(ierr);
1215c4762a1bSJed Brown         p    = buffer + 2;
1216c4762a1bSJed Brown       } else if (i) {
1217c4762a1bSJed Brown         char newline[] = "\n";
1218c4762a1bSJed Brown         ierr = PetscMemcpy(buffer,newline,sizeof(newline)-1);CHKERRQ(ierr);
1219c4762a1bSJed Brown         p    = buffer + sizeof(newline) - 1;
1220c4762a1bSJed Brown       } else {
1221c4762a1bSJed Brown         p = buffer;
1222c4762a1bSJed Brown       }
1223c4762a1bSJed Brown       ierr = 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]);CHKERRQ(ierr);
1224c4762a1bSJed Brown       countused--;
1225c4762a1bSJed Brown       countused += p - buffer;
1226c4762a1bSJed Brown       if (countused > ftablealloc-ftableused-1) { /* reallocate */
1227c4762a1bSJed Brown         char *ftablenew;
1228c4762a1bSJed Brown         ftablealloc = 2*ftablealloc + countused;
1229c4762a1bSJed Brown         ierr = PetscMalloc(ftablealloc,&ftablenew);CHKERRQ(ierr);
1230c4762a1bSJed Brown         ierr = PetscArraycpy(ftablenew,ftable,ftableused);CHKERRQ(ierr);
1231c4762a1bSJed Brown         ierr = PetscFree(ftable);CHKERRQ(ierr);
1232c4762a1bSJed Brown         ftable = ftablenew;
1233c4762a1bSJed Brown       }
1234c4762a1bSJed Brown       ierr = PetscArraycpy(ftable+ftableused,buffer,countused);CHKERRQ(ierr);
1235c4762a1bSJed Brown       ftableused += countused;
1236c4762a1bSJed Brown       ftable[ftableused] = 0;
1237c4762a1bSJed Brown     }
1238c4762a1bSJed Brown     ierr = PetscFree4(fmin,fmax,fintegral,ftmp);CHKERRQ(ierr);
1239c4762a1bSJed Brown 
1240c4762a1bSJed Brown     ierr = PetscPrintf(PetscObjectComm((PetscObject)ts),"% 3D  time %8.4g  |x| %8.4g  %s\n",stepnum,(double)time,(double)xnorm,ftable ? ftable : "");CHKERRQ(ierr);
1241c4762a1bSJed Brown     ierr = PetscFree(ftable);CHKERRQ(ierr);
1242c4762a1bSJed Brown   }
1243c4762a1bSJed Brown   if (user->vtkInterval < 1) PetscFunctionReturn(0);
1244c4762a1bSJed Brown   if ((stepnum == -1) ^ (stepnum % user->vtkInterval == 0)) {
1245c4762a1bSJed Brown     if (stepnum == -1) {        /* Final time is not multiple of normal time interval, write it anyway */
1246c4762a1bSJed Brown       ierr = TSGetStepNumber(ts,&stepnum);CHKERRQ(ierr);
1247c4762a1bSJed Brown     }
1248c4762a1bSJed Brown     ierr = PetscSNPrintf(filename,sizeof filename,"%s-%03D.vtu",user->outputBasename,stepnum);CHKERRQ(ierr);
1249c4762a1bSJed Brown     ierr = OutputVTK(dm,filename,&viewer);CHKERRQ(ierr);
1250c4762a1bSJed Brown     ierr = VecView(X,viewer);CHKERRQ(ierr);
1251c4762a1bSJed Brown     ierr = PetscViewerDestroy(&viewer);CHKERRQ(ierr);
1252c4762a1bSJed Brown   }
1253c4762a1bSJed Brown   PetscFunctionReturn(0);
1254c4762a1bSJed Brown }
1255c4762a1bSJed Brown 
1256c4762a1bSJed Brown static PetscErrorCode initializeTS(DM dm, User user, TS *ts)
1257c4762a1bSJed Brown {
1258c4762a1bSJed Brown   PetscErrorCode ierr;
1259c4762a1bSJed Brown 
1260c4762a1bSJed Brown   PetscFunctionBegin;
1261c4762a1bSJed Brown   ierr = TSCreate(PetscObjectComm((PetscObject)dm), ts);CHKERRQ(ierr);
1262c4762a1bSJed Brown   ierr = TSSetType(*ts, TSSSP);CHKERRQ(ierr);
1263c4762a1bSJed Brown   ierr = TSSetDM(*ts, dm);CHKERRQ(ierr);
1264c4762a1bSJed Brown   if (user->vtkmon) {
1265c4762a1bSJed Brown     ierr = TSMonitorSet(*ts,MonitorVTK,user,NULL);CHKERRQ(ierr);
1266c4762a1bSJed Brown   }
1267c4762a1bSJed Brown   ierr = DMTSSetBoundaryLocal(dm, DMPlexTSComputeBoundary, user);CHKERRQ(ierr);
1268c4762a1bSJed Brown   ierr = DMTSSetRHSFunctionLocal(dm, DMPlexTSComputeRHSFunctionFVM, user);CHKERRQ(ierr);
1269c4762a1bSJed Brown   ierr = TSSetMaxTime(*ts,2.0);CHKERRQ(ierr);
1270c4762a1bSJed Brown   ierr = TSSetExactFinalTime(*ts,TS_EXACTFINALTIME_STEPOVER);CHKERRQ(ierr);
1271c4762a1bSJed Brown   PetscFunctionReturn(0);
1272c4762a1bSJed Brown }
1273c4762a1bSJed Brown 
1274c4762a1bSJed Brown static PetscErrorCode adaptToleranceFVM(PetscFV fvm, TS ts, Vec sol, VecTagger refineTag, VecTagger coarsenTag, User user, TS *tsNew, Vec *solNew)
1275c4762a1bSJed Brown {
1276c4762a1bSJed Brown   DM                dm, gradDM, plex, cellDM, adaptedDM = NULL;
1277c4762a1bSJed Brown   Vec               cellGeom, faceGeom;
1278c4762a1bSJed Brown   PetscBool         isForest, computeGradient;
1279c4762a1bSJed Brown   Vec               grad, locGrad, locX, errVec;
1280c4762a1bSJed Brown   PetscInt          cStart, cEnd, c, dim, nRefine, nCoarsen;
1281c4762a1bSJed Brown   PetscReal         minMaxInd[2] = {PETSC_MAX_REAL, PETSC_MIN_REAL}, minMaxIndGlobal[2], minInd, maxInd, time;
1282c4762a1bSJed Brown   PetscScalar       *errArray;
1283c4762a1bSJed Brown   const PetscScalar *pointVals;
1284c4762a1bSJed Brown   const PetscScalar *pointGrads;
1285c4762a1bSJed Brown   const PetscScalar *pointGeom;
1286c4762a1bSJed Brown   DMLabel           adaptLabel = NULL;
1287c4762a1bSJed Brown   IS                refineIS, coarsenIS;
1288c4762a1bSJed Brown   PetscErrorCode    ierr;
1289c4762a1bSJed Brown 
1290c4762a1bSJed Brown   PetscFunctionBegin;
1291c4762a1bSJed Brown   ierr = TSGetTime(ts,&time);CHKERRQ(ierr);
1292c4762a1bSJed Brown   ierr = VecGetDM(sol, &dm);CHKERRQ(ierr);
1293c4762a1bSJed Brown   ierr = DMGetDimension(dm,&dim);CHKERRQ(ierr);
1294c4762a1bSJed Brown   ierr = PetscFVGetComputeGradients(fvm,&computeGradient);CHKERRQ(ierr);
1295c4762a1bSJed Brown   ierr = PetscFVSetComputeGradients(fvm,PETSC_TRUE);CHKERRQ(ierr);
1296c4762a1bSJed Brown   ierr = DMIsForest(dm, &isForest);CHKERRQ(ierr);
1297c4762a1bSJed Brown   ierr = DMConvert(dm, DMPLEX, &plex);CHKERRQ(ierr);
1298c4762a1bSJed Brown   ierr = DMPlexGetDataFVM(plex, fvm, &cellGeom, &faceGeom, &gradDM);CHKERRQ(ierr);
1299c4762a1bSJed Brown   ierr = DMCreateLocalVector(plex,&locX);CHKERRQ(ierr);
1300c4762a1bSJed Brown   ierr = DMPlexInsertBoundaryValues(plex, PETSC_TRUE, locX, 0.0, faceGeom, cellGeom, NULL);CHKERRQ(ierr);
1301c4762a1bSJed Brown   ierr = DMGlobalToLocalBegin(plex, sol, INSERT_VALUES, locX);CHKERRQ(ierr);
1302c4762a1bSJed Brown   ierr = DMGlobalToLocalEnd  (plex, sol, INSERT_VALUES, locX);CHKERRQ(ierr);
1303c4762a1bSJed Brown   ierr = DMCreateGlobalVector(gradDM, &grad);CHKERRQ(ierr);
1304c4762a1bSJed Brown   ierr = DMPlexReconstructGradientsFVM(plex, locX, grad);CHKERRQ(ierr);
1305c4762a1bSJed Brown   ierr = DMCreateLocalVector(gradDM, &locGrad);CHKERRQ(ierr);
1306c4762a1bSJed Brown   ierr = DMGlobalToLocalBegin(gradDM, grad, INSERT_VALUES, locGrad);CHKERRQ(ierr);
1307c4762a1bSJed Brown   ierr = DMGlobalToLocalEnd(gradDM, grad, INSERT_VALUES, locGrad);CHKERRQ(ierr);
1308c4762a1bSJed Brown   ierr = VecDestroy(&grad);CHKERRQ(ierr);
130954fcfd0cSMatthew G. Knepley   ierr = DMPlexGetSimplexOrBoxCells(plex,0,&cStart,&cEnd);CHKERRQ(ierr);
1310c4762a1bSJed Brown   ierr = VecGetArrayRead(locGrad,&pointGrads);CHKERRQ(ierr);
1311c4762a1bSJed Brown   ierr = VecGetArrayRead(cellGeom,&pointGeom);CHKERRQ(ierr);
1312c4762a1bSJed Brown   ierr = VecGetArrayRead(locX,&pointVals);CHKERRQ(ierr);
1313c4762a1bSJed Brown   ierr = VecGetDM(cellGeom,&cellDM);CHKERRQ(ierr);
1314c4762a1bSJed Brown   ierr = DMLabelCreate(PETSC_COMM_SELF,"adapt",&adaptLabel);CHKERRQ(ierr);
1315c4762a1bSJed Brown   ierr = VecCreateMPI(PetscObjectComm((PetscObject)plex),cEnd-cStart,PETSC_DETERMINE,&errVec);CHKERRQ(ierr);
1316c4762a1bSJed Brown   ierr = VecSetUp(errVec);CHKERRQ(ierr);
1317c4762a1bSJed Brown   ierr = VecGetArray(errVec,&errArray);CHKERRQ(ierr);
1318c4762a1bSJed Brown   for (c = cStart; c < cEnd; c++) {
1319c4762a1bSJed Brown     PetscReal             errInd = 0.;
1320c4762a1bSJed Brown     PetscScalar           *pointGrad;
1321c4762a1bSJed Brown     PetscScalar           *pointVal;
1322c4762a1bSJed Brown     PetscFVCellGeom       *cg;
1323c4762a1bSJed Brown 
1324c4762a1bSJed Brown     ierr = DMPlexPointLocalRead(gradDM,c,pointGrads,&pointGrad);CHKERRQ(ierr);
1325c4762a1bSJed Brown     ierr = DMPlexPointLocalRead(cellDM,c,pointGeom,&cg);CHKERRQ(ierr);
1326c4762a1bSJed Brown     ierr = DMPlexPointLocalRead(plex,c,pointVals,&pointVal);CHKERRQ(ierr);
1327c4762a1bSJed Brown 
1328c4762a1bSJed Brown     ierr = (user->model->errorIndicator)(dim,cg->volume,user->model->physics->dof,pointVal,pointGrad,&errInd,user->model->errorCtx);CHKERRQ(ierr);
1329c4762a1bSJed Brown     errArray[c-cStart] = errInd;
1330c4762a1bSJed Brown     minMaxInd[0] = PetscMin(minMaxInd[0],errInd);
1331c4762a1bSJed Brown     minMaxInd[1] = PetscMax(minMaxInd[1],errInd);
1332c4762a1bSJed Brown   }
1333c4762a1bSJed Brown   ierr = VecRestoreArray(errVec,&errArray);CHKERRQ(ierr);
1334c4762a1bSJed Brown   ierr = VecRestoreArrayRead(locX,&pointVals);CHKERRQ(ierr);
1335c4762a1bSJed Brown   ierr = VecRestoreArrayRead(cellGeom,&pointGeom);CHKERRQ(ierr);
1336c4762a1bSJed Brown   ierr = VecRestoreArrayRead(locGrad,&pointGrads);CHKERRQ(ierr);
1337c4762a1bSJed Brown   ierr = VecDestroy(&locGrad);CHKERRQ(ierr);
1338c4762a1bSJed Brown   ierr = VecDestroy(&locX);CHKERRQ(ierr);
1339c4762a1bSJed Brown   ierr = DMDestroy(&plex);CHKERRQ(ierr);
1340c4762a1bSJed Brown 
13411cee10b1SBarry Smith   ierr = VecTaggerComputeIS(refineTag,errVec,&refineIS,NULL);CHKERRQ(ierr);
13421cee10b1SBarry Smith   ierr = VecTaggerComputeIS(coarsenTag,errVec,&coarsenIS,NULL);CHKERRQ(ierr);
1343c4762a1bSJed Brown   ierr = ISGetSize(refineIS,&nRefine);CHKERRQ(ierr);
1344c4762a1bSJed Brown   ierr = ISGetSize(coarsenIS,&nCoarsen);CHKERRQ(ierr);
1345c4762a1bSJed Brown   if (nRefine) {ierr = DMLabelSetStratumIS(adaptLabel,DM_ADAPT_REFINE,refineIS);CHKERRQ(ierr);}
1346c4762a1bSJed Brown   if (nCoarsen) {ierr = DMLabelSetStratumIS(adaptLabel,DM_ADAPT_COARSEN,coarsenIS);CHKERRQ(ierr);}
1347c4762a1bSJed Brown   ierr = ISDestroy(&coarsenIS);CHKERRQ(ierr);
1348c4762a1bSJed Brown   ierr = ISDestroy(&refineIS);CHKERRQ(ierr);
1349c4762a1bSJed Brown   ierr = VecDestroy(&errVec);CHKERRQ(ierr);
1350c4762a1bSJed Brown 
1351c4762a1bSJed Brown   ierr = PetscFVSetComputeGradients(fvm,computeGradient);CHKERRQ(ierr);
1352c4762a1bSJed Brown   minMaxInd[1] = -minMaxInd[1];
1353ffc4695bSBarry Smith   ierr = MPI_Allreduce(minMaxInd,minMaxIndGlobal,2,MPIU_REAL,MPI_MIN,PetscObjectComm((PetscObject)dm));CHKERRMPI(ierr);
1354c4762a1bSJed Brown   minInd = minMaxIndGlobal[0];
1355c4762a1bSJed Brown   maxInd = -minMaxIndGlobal[1];
13567d3de750SJacob Faibussowitsch   ierr = PetscInfo(ts, "error indicator range (%E, %E)\n", minInd, maxInd);CHKERRQ(ierr);
1357c4762a1bSJed Brown   if (nRefine || nCoarsen) { /* at least one cell is over the refinement threshold */
1358c4762a1bSJed Brown     ierr = DMAdaptLabel(dm,adaptLabel,&adaptedDM);CHKERRQ(ierr);
1359c4762a1bSJed Brown   }
1360c4762a1bSJed Brown   ierr = DMLabelDestroy(&adaptLabel);CHKERRQ(ierr);
1361c4762a1bSJed Brown   if (adaptedDM) {
13627d3de750SJacob Faibussowitsch     ierr = PetscInfo(ts, "Adapted mesh, marking %D cells for refinement, and %D cells for coarsening\n", nRefine, nCoarsen);CHKERRQ(ierr);
1363c4762a1bSJed Brown     if (tsNew) {ierr = initializeTS(adaptedDM, user, tsNew);CHKERRQ(ierr);}
1364c4762a1bSJed Brown     if (solNew) {
1365c4762a1bSJed Brown       ierr = DMCreateGlobalVector(adaptedDM, solNew);CHKERRQ(ierr);
1366c4762a1bSJed Brown       ierr = PetscObjectSetName((PetscObject) *solNew, "solution");CHKERRQ(ierr);
1367c4762a1bSJed Brown       ierr = DMForestTransferVec(dm, sol, adaptedDM, *solNew, PETSC_TRUE, time);CHKERRQ(ierr);
1368c4762a1bSJed Brown     }
1369c4762a1bSJed Brown     if (isForest) {ierr = DMForestSetAdaptivityForest(adaptedDM,NULL);CHKERRQ(ierr);} /* clear internal references to the previous dm */
1370c4762a1bSJed Brown     ierr = DMDestroy(&adaptedDM);CHKERRQ(ierr);
1371c4762a1bSJed Brown   } else {
1372c4762a1bSJed Brown     if (tsNew)  *tsNew  = NULL;
1373c4762a1bSJed Brown     if (solNew) *solNew = NULL;
1374c4762a1bSJed Brown   }
1375c4762a1bSJed Brown   PetscFunctionReturn(0);
1376c4762a1bSJed Brown }
1377c4762a1bSJed Brown 
1378c4762a1bSJed Brown int main(int argc, char **argv)
1379c4762a1bSJed Brown {
1380c4762a1bSJed Brown   MPI_Comm          comm;
1381c4762a1bSJed Brown   PetscDS           prob;
1382c4762a1bSJed Brown   PetscFV           fvm;
1383c4762a1bSJed Brown   PetscLimiter      limiter = NULL, noneLimiter = NULL;
1384c4762a1bSJed Brown   User              user;
1385c4762a1bSJed Brown   Model             mod;
1386c4762a1bSJed Brown   Physics           phys;
13873e9753d6SMatthew G. Knepley   DM                dm, plex;
1388c4762a1bSJed Brown   PetscReal         ftime, cfl, dt, minRadius;
1389c4762a1bSJed Brown   PetscInt          dim, nsteps;
1390c4762a1bSJed Brown   TS                ts;
1391c4762a1bSJed Brown   TSConvergedReason reason;
1392c4762a1bSJed Brown   Vec               X;
1393c4762a1bSJed Brown   PetscViewer       viewer;
1394b5a892a1SMatthew G. Knepley   PetscBool         vtkCellGeom, useAMR;
139530602db0SMatthew G. Knepley   PetscInt          adaptInterval;
1396c4762a1bSJed Brown   char              physname[256]  = "advect";
1397c4762a1bSJed Brown   VecTagger         refineTag = NULL, coarsenTag = NULL;
1398c4762a1bSJed Brown   PetscErrorCode    ierr;
1399c4762a1bSJed Brown 
1400c4762a1bSJed Brown   ierr = PetscInitialize(&argc, &argv, (char*) 0, help);if (ierr) return ierr;
1401c4762a1bSJed Brown   comm = PETSC_COMM_WORLD;
1402c4762a1bSJed Brown 
1403c4762a1bSJed Brown   ierr          = PetscNew(&user);CHKERRQ(ierr);
1404c4762a1bSJed Brown   ierr          = PetscNew(&user->model);CHKERRQ(ierr);
1405c4762a1bSJed Brown   ierr          = PetscNew(&user->model->physics);CHKERRQ(ierr);
1406c4762a1bSJed Brown   mod           = user->model;
1407c4762a1bSJed Brown   phys          = mod->physics;
1408c4762a1bSJed Brown   mod->comm     = comm;
1409c4762a1bSJed Brown   useAMR        = PETSC_FALSE;
1410c4762a1bSJed Brown   adaptInterval = 1;
1411c4762a1bSJed Brown 
1412c4762a1bSJed Brown   /* Register physical models to be available on the command line */
1413c4762a1bSJed Brown   ierr = PetscFunctionListAdd(&PhysicsList,"advect"          ,PhysicsCreate_Advect);CHKERRQ(ierr);
1414c4762a1bSJed Brown   ierr = PetscFunctionListAdd(&PhysicsList,"sw"              ,PhysicsCreate_SW);CHKERRQ(ierr);
1415c4762a1bSJed Brown   ierr = PetscFunctionListAdd(&PhysicsList,"euler"           ,PhysicsCreate_Euler);CHKERRQ(ierr);
1416c4762a1bSJed Brown 
1417c4762a1bSJed Brown   ierr = PetscOptionsBegin(comm,NULL,"Unstructured Finite Volume Mesh Options","");CHKERRQ(ierr);
1418c4762a1bSJed Brown   {
1419c4762a1bSJed Brown     cfl  = 0.9 * 4; /* default SSPRKS2 with s=5 stages is stable for CFL number s-1 */
1420c4762a1bSJed Brown     ierr = PetscOptionsReal("-ufv_cfl","CFL number per step","",cfl,&cfl,NULL);CHKERRQ(ierr);
1421c4762a1bSJed Brown     user->vtkInterval = 1;
1422c4762a1bSJed Brown     ierr = PetscOptionsInt("-ufv_vtk_interval","VTK output interval (0 to disable)","",user->vtkInterval,&user->vtkInterval,NULL);CHKERRQ(ierr);
1423c4762a1bSJed Brown     user->vtkmon = PETSC_TRUE;
1424c4762a1bSJed Brown     ierr = PetscOptionsBool("-ufv_vtk_monitor","Use VTKMonitor routine","",user->vtkmon,&user->vtkmon,NULL);CHKERRQ(ierr);
1425c4762a1bSJed Brown     vtkCellGeom = PETSC_FALSE;
1426c4762a1bSJed Brown     ierr = PetscStrcpy(user->outputBasename, "ex11");CHKERRQ(ierr);
1427589a23caSBarry Smith     ierr = PetscOptionsString("-ufv_vtk_basename","VTK output basename","",user->outputBasename,user->outputBasename,sizeof(user->outputBasename),NULL);CHKERRQ(ierr);
1428c4762a1bSJed Brown     ierr = PetscOptionsBool("-ufv_vtk_cellgeom","Write cell geometry (for debugging)","",vtkCellGeom,&vtkCellGeom,NULL);CHKERRQ(ierr);
1429c4762a1bSJed Brown     ierr = PetscOptionsBool("-ufv_use_amr","use local adaptive mesh refinement","",useAMR,&useAMR,NULL);CHKERRQ(ierr);
1430c4762a1bSJed Brown     ierr = PetscOptionsInt("-ufv_adapt_interval","time steps between AMR","",adaptInterval,&adaptInterval,NULL);CHKERRQ(ierr);
1431c4762a1bSJed Brown   }
1432c4762a1bSJed Brown   ierr = PetscOptionsEnd();CHKERRQ(ierr);
1433c4762a1bSJed Brown 
1434c4762a1bSJed Brown   if (useAMR) {
1435c4762a1bSJed Brown     VecTaggerBox refineBox, coarsenBox;
1436c4762a1bSJed Brown 
1437c4762a1bSJed Brown     refineBox.min  = refineBox.max  = PETSC_MAX_REAL;
1438c4762a1bSJed Brown     coarsenBox.min = coarsenBox.max = PETSC_MIN_REAL;
1439c4762a1bSJed Brown 
1440c4762a1bSJed Brown     ierr = VecTaggerCreate(comm,&refineTag);CHKERRQ(ierr);
1441c4762a1bSJed Brown     ierr = PetscObjectSetOptionsPrefix((PetscObject)refineTag,"refine_");CHKERRQ(ierr);
1442c4762a1bSJed Brown     ierr = VecTaggerSetType(refineTag,VECTAGGERABSOLUTE);CHKERRQ(ierr);
1443c4762a1bSJed Brown     ierr = VecTaggerAbsoluteSetBox(refineTag,&refineBox);CHKERRQ(ierr);
1444c4762a1bSJed Brown     ierr = VecTaggerSetFromOptions(refineTag);CHKERRQ(ierr);
1445c4762a1bSJed Brown     ierr = VecTaggerSetUp(refineTag);CHKERRQ(ierr);
1446c4762a1bSJed Brown     ierr = PetscObjectViewFromOptions((PetscObject)refineTag,NULL,"-tag_view");CHKERRQ(ierr);
1447c4762a1bSJed Brown 
1448c4762a1bSJed Brown     ierr = VecTaggerCreate(comm,&coarsenTag);CHKERRQ(ierr);
1449c4762a1bSJed Brown     ierr = PetscObjectSetOptionsPrefix((PetscObject)coarsenTag,"coarsen_");CHKERRQ(ierr);
1450c4762a1bSJed Brown     ierr = VecTaggerSetType(coarsenTag,VECTAGGERABSOLUTE);CHKERRQ(ierr);
1451c4762a1bSJed Brown     ierr = VecTaggerAbsoluteSetBox(coarsenTag,&coarsenBox);CHKERRQ(ierr);
1452c4762a1bSJed Brown     ierr = VecTaggerSetFromOptions(coarsenTag);CHKERRQ(ierr);
1453c4762a1bSJed Brown     ierr = VecTaggerSetUp(coarsenTag);CHKERRQ(ierr);
1454c4762a1bSJed Brown     ierr = PetscObjectViewFromOptions((PetscObject)coarsenTag,NULL,"-tag_view");CHKERRQ(ierr);
1455c4762a1bSJed Brown   }
1456c4762a1bSJed Brown 
1457c4762a1bSJed Brown   ierr = PetscOptionsBegin(comm,NULL,"Unstructured Finite Volume Physics Options","");CHKERRQ(ierr);
1458c4762a1bSJed Brown   {
1459c4762a1bSJed Brown     PetscErrorCode (*physcreate)(Model,Physics,PetscOptionItems*);
1460c4762a1bSJed Brown     ierr = PetscOptionsFList("-physics","Physics module to solve","",PhysicsList,physname,physname,sizeof physname,NULL);CHKERRQ(ierr);
1461c4762a1bSJed Brown     ierr = PetscFunctionListFind(PhysicsList,physname,&physcreate);CHKERRQ(ierr);
1462c4762a1bSJed Brown     ierr = PetscMemzero(phys,sizeof(struct _n_Physics));CHKERRQ(ierr);
1463c4762a1bSJed Brown     ierr = (*physcreate)(mod,phys,PetscOptionsObject);CHKERRQ(ierr);
1464c4762a1bSJed Brown     /* Count number of fields and dofs */
1465c4762a1bSJed Brown     for (phys->nfields=0,phys->dof=0; phys->field_desc[phys->nfields].name; phys->nfields++) phys->dof += phys->field_desc[phys->nfields].dof;
14662c71b3e2SJacob Faibussowitsch     PetscCheckFalse(phys->dof <= 0,comm,PETSC_ERR_ARG_WRONGSTATE,"Physics '%s' did not set dof",physname);
1467c4762a1bSJed Brown     ierr = ModelFunctionalSetFromOptions(mod,PetscOptionsObject);CHKERRQ(ierr);
1468c4762a1bSJed Brown   }
1469c4762a1bSJed Brown   ierr = PetscOptionsEnd();CHKERRQ(ierr);
1470c4762a1bSJed Brown 
1471c4762a1bSJed Brown   /* Create mesh */
1472c4762a1bSJed Brown   {
147330602db0SMatthew G. Knepley     PetscInt i;
147430602db0SMatthew G. Knepley 
147530602db0SMatthew G. Knepley     ierr = DMCreate(comm, &dm);CHKERRQ(ierr);
147630602db0SMatthew G. Knepley     ierr = DMSetType(dm, DMPLEX);CHKERRQ(ierr);
147730602db0SMatthew G. Knepley     ierr = DMSetFromOptions(dm);CHKERRQ(ierr);
1478c4762a1bSJed Brown     for (i = 0; i < DIM; i++) { mod->bounds[2*i] = 0.; mod->bounds[2*i+1] = 1.;};
1479c4762a1bSJed Brown     dim = DIM;
148030602db0SMatthew G. Knepley     { /* a null name means just do a hex box */
148130602db0SMatthew G. Knepley       PetscInt  cells[3] = {1, 1, 1}, n = 3;
148230602db0SMatthew G. Knepley       PetscBool flg2, skew = PETSC_FALSE;
1483c4762a1bSJed Brown       PetscInt nret2 = 2*DIM;
1484c4762a1bSJed Brown       ierr = PetscOptionsBegin(comm,NULL,"Rectangular mesh options","");CHKERRQ(ierr);
1485c4762a1bSJed Brown       ierr = PetscOptionsRealArray("-grid_bounds","bounds of the mesh in each direction (i.e., x_min,x_max,y_min,y_max","",mod->bounds,&nret2,&flg2);CHKERRQ(ierr);
1486c4762a1bSJed Brown       ierr = PetscOptionsBool("-grid_skew_60","Skew grid for 60 degree shock mesh","",skew,&skew,NULL);CHKERRQ(ierr);
148730602db0SMatthew G. Knepley       ierr = PetscOptionsIntArray("-dm_plex_box_faces", "Number of faces along each dimension", "", cells, &n, NULL);CHKERRQ(ierr);
1488c4762a1bSJed Brown       ierr = PetscOptionsEnd();CHKERRQ(ierr);
148930602db0SMatthew G. Knepley       /* TODO Rewrite this with Mark, and remove grid_bounds at that time */
1490c4762a1bSJed Brown       if (flg2) {
1491c4762a1bSJed Brown         PetscInt dimEmbed, i;
1492c4762a1bSJed Brown         PetscInt nCoords;
1493c4762a1bSJed Brown         PetscScalar *coords;
1494c4762a1bSJed Brown         Vec coordinates;
1495c4762a1bSJed Brown 
1496c4762a1bSJed Brown         ierr = DMGetCoordinatesLocal(dm,&coordinates);CHKERRQ(ierr);
1497c4762a1bSJed Brown         ierr = DMGetCoordinateDim(dm,&dimEmbed);CHKERRQ(ierr);
1498c4762a1bSJed Brown         ierr = VecGetLocalSize(coordinates,&nCoords);CHKERRQ(ierr);
14992c71b3e2SJacob Faibussowitsch         PetscCheckFalse(nCoords % dimEmbed,PETSC_COMM_SELF,PETSC_ERR_ARG_SIZ,"Coordinate vector the wrong size");
1500c4762a1bSJed Brown         ierr = VecGetArray(coordinates,&coords);CHKERRQ(ierr);
1501c4762a1bSJed Brown         for (i = 0; i < nCoords; i += dimEmbed) {
1502c4762a1bSJed Brown           PetscInt j;
1503c4762a1bSJed Brown 
1504c4762a1bSJed Brown           PetscScalar *coord = &coords[i];
1505c4762a1bSJed Brown           for (j = 0; j < dimEmbed; j++) {
1506c4762a1bSJed Brown             coord[j] = mod->bounds[2 * j] + coord[j] * (mod->bounds[2 * j + 1] - mod->bounds[2 * j]);
1507c4762a1bSJed Brown             if (dim==2 && cells[1]==1 && j==0 && skew) {
1508c4762a1bSJed Brown               if (cells[0] == 2 && i == 8) {
1509c4762a1bSJed Brown                 coord[j] = .57735026918963; /* hack to get 60 deg skewed mesh */
151030602db0SMatthew G. Knepley               } else if (cells[0] == 3) {
1511c4762a1bSJed Brown                 if (i==2 || i==10) coord[j] = mod->bounds[1]/4.;
1512c4762a1bSJed Brown                 else if (i==4) coord[j] = mod->bounds[1]/2.;
1513c4762a1bSJed Brown                 else if (i==12) coord[j] = 1.57735026918963*mod->bounds[1]/2.;
1514c4762a1bSJed Brown               }
1515c4762a1bSJed Brown             }
1516c4762a1bSJed Brown           }
1517c4762a1bSJed Brown         }
1518c4762a1bSJed Brown         ierr = VecRestoreArray(coordinates,&coords);CHKERRQ(ierr);
1519c4762a1bSJed Brown         ierr = DMSetCoordinatesLocal(dm,coordinates);CHKERRQ(ierr);
1520c4762a1bSJed Brown       }
1521c4762a1bSJed Brown     }
1522c4762a1bSJed Brown   }
1523c4762a1bSJed Brown   ierr = DMViewFromOptions(dm, NULL, "-orig_dm_view");CHKERRQ(ierr);
1524c4762a1bSJed Brown   ierr = DMGetDimension(dm, &dim);CHKERRQ(ierr);
1525c4762a1bSJed Brown 
1526c4762a1bSJed Brown   /* set up BCs, functions, tags */
1527c4762a1bSJed Brown   ierr = DMCreateLabel(dm, "Face Sets");CHKERRQ(ierr);
1528c4762a1bSJed Brown   mod->errorIndicator = ErrorIndicator_Simple;
1529c4762a1bSJed Brown 
1530c4762a1bSJed Brown   {
1531c4762a1bSJed Brown     DM gdm;
1532c4762a1bSJed Brown 
1533c4762a1bSJed Brown     ierr = DMPlexConstructGhostCells(dm, NULL, NULL, &gdm);CHKERRQ(ierr);
1534c4762a1bSJed Brown     ierr = DMDestroy(&dm);CHKERRQ(ierr);
1535c4762a1bSJed Brown     dm   = gdm;
1536c4762a1bSJed Brown     ierr = DMViewFromOptions(dm, NULL, "-dm_view");CHKERRQ(ierr);
1537c4762a1bSJed Brown   }
1538c4762a1bSJed Brown 
1539c4762a1bSJed Brown   ierr = PetscFVCreate(comm, &fvm);CHKERRQ(ierr);
1540c4762a1bSJed Brown   ierr = PetscFVSetFromOptions(fvm);CHKERRQ(ierr);
1541c4762a1bSJed Brown   ierr = PetscFVSetNumComponents(fvm, phys->dof);CHKERRQ(ierr);
1542c4762a1bSJed Brown   ierr = PetscFVSetSpatialDimension(fvm, dim);CHKERRQ(ierr);
1543c4762a1bSJed Brown   ierr = PetscObjectSetName((PetscObject) fvm,"");CHKERRQ(ierr);
1544c4762a1bSJed Brown   {
1545c4762a1bSJed Brown     PetscInt f, dof;
1546c4762a1bSJed Brown     for (f=0,dof=0; f < phys->nfields; f++) {
1547c4762a1bSJed Brown       PetscInt newDof = phys->field_desc[f].dof;
1548c4762a1bSJed Brown 
1549c4762a1bSJed Brown       if (newDof == 1) {
1550c4762a1bSJed Brown         ierr = PetscFVSetComponentName(fvm,dof,phys->field_desc[f].name);CHKERRQ(ierr);
1551c4762a1bSJed Brown       }
1552c4762a1bSJed Brown       else {
1553c4762a1bSJed Brown         PetscInt j;
1554c4762a1bSJed Brown 
1555c4762a1bSJed Brown         for (j = 0; j < newDof; j++) {
1556c4762a1bSJed Brown           char     compName[256]  = "Unknown";
1557c4762a1bSJed Brown 
1558c4762a1bSJed Brown           ierr = PetscSNPrintf(compName,sizeof(compName),"%s_%d",phys->field_desc[f].name,j);CHKERRQ(ierr);
1559c4762a1bSJed Brown           ierr = PetscFVSetComponentName(fvm,dof+j,compName);CHKERRQ(ierr);
1560c4762a1bSJed Brown         }
1561c4762a1bSJed Brown       }
1562c4762a1bSJed Brown       dof += newDof;
1563c4762a1bSJed Brown     }
1564c4762a1bSJed Brown   }
1565c4762a1bSJed Brown   /* FV is now structured with one field having all physics as components */
1566c4762a1bSJed Brown   ierr = DMAddField(dm, NULL, (PetscObject) fvm);CHKERRQ(ierr);
1567c4762a1bSJed Brown   ierr = DMCreateDS(dm);CHKERRQ(ierr);
1568c4762a1bSJed Brown   ierr = DMGetDS(dm, &prob);CHKERRQ(ierr);
1569c4762a1bSJed Brown   ierr = PetscDSSetRiemannSolver(prob, 0, user->model->physics->riemann);CHKERRQ(ierr);
1570c4762a1bSJed Brown   ierr = PetscDSSetContext(prob, 0, user->model->physics);CHKERRQ(ierr);
157145480ffeSMatthew G. Knepley   ierr = (*mod->setupbc)(dm, prob,phys);CHKERRQ(ierr);
1572c4762a1bSJed Brown   ierr = PetscDSSetFromOptions(prob);CHKERRQ(ierr);
1573c4762a1bSJed Brown   {
1574c4762a1bSJed Brown     char      convType[256];
1575c4762a1bSJed Brown     PetscBool flg;
1576c4762a1bSJed Brown 
1577c4762a1bSJed Brown     ierr = PetscOptionsBegin(comm, "", "Mesh conversion options", "DMPLEX");CHKERRQ(ierr);
1578c4762a1bSJed Brown     ierr = PetscOptionsFList("-dm_type","Convert DMPlex to another format","ex12",DMList,DMPLEX,convType,256,&flg);CHKERRQ(ierr);
1579c4762a1bSJed Brown     ierr = PetscOptionsEnd();CHKERRQ(ierr);
1580c4762a1bSJed Brown     if (flg) {
1581c4762a1bSJed Brown       DM dmConv;
1582c4762a1bSJed Brown 
1583c4762a1bSJed Brown       ierr = DMConvert(dm,convType,&dmConv);CHKERRQ(ierr);
1584c4762a1bSJed Brown       if (dmConv) {
1585c4762a1bSJed Brown         ierr = DMViewFromOptions(dmConv, NULL, "-dm_conv_view");CHKERRQ(ierr);
1586c4762a1bSJed Brown         ierr = DMDestroy(&dm);CHKERRQ(ierr);
1587c4762a1bSJed Brown         dm   = dmConv;
1588c4762a1bSJed Brown         ierr = DMSetFromOptions(dm);CHKERRQ(ierr);
1589c4762a1bSJed Brown       }
1590c4762a1bSJed Brown     }
1591c4762a1bSJed Brown   }
1592c4762a1bSJed Brown 
1593c4762a1bSJed Brown   ierr = initializeTS(dm, user, &ts);CHKERRQ(ierr);
1594c4762a1bSJed Brown 
1595c4762a1bSJed Brown   ierr = DMCreateGlobalVector(dm, &X);CHKERRQ(ierr);
1596c4762a1bSJed Brown   ierr = PetscObjectSetName((PetscObject) X, "solution");CHKERRQ(ierr);
1597c4762a1bSJed Brown   ierr = SetInitialCondition(dm, X, user);CHKERRQ(ierr);
1598c4762a1bSJed Brown   if (useAMR) {
1599c4762a1bSJed Brown     PetscInt adaptIter;
1600c4762a1bSJed Brown 
1601c4762a1bSJed Brown     /* use no limiting when reconstructing gradients for adaptivity */
1602c4762a1bSJed Brown     ierr = PetscFVGetLimiter(fvm, &limiter);CHKERRQ(ierr);
1603c4762a1bSJed Brown     ierr = PetscObjectReference((PetscObject) limiter);CHKERRQ(ierr);
1604c4762a1bSJed Brown     ierr = PetscLimiterCreate(PetscObjectComm((PetscObject) fvm), &noneLimiter);CHKERRQ(ierr);
1605c4762a1bSJed Brown     ierr = PetscLimiterSetType(noneLimiter, PETSCLIMITERNONE);CHKERRQ(ierr);
1606c4762a1bSJed Brown 
1607c4762a1bSJed Brown     ierr = PetscFVSetLimiter(fvm, noneLimiter);CHKERRQ(ierr);
1608c4762a1bSJed Brown     for (adaptIter = 0; ; ++adaptIter) {
1609c4762a1bSJed Brown       PetscLogDouble bytes;
1610c4762a1bSJed Brown       TS             tsNew = NULL;
1611c4762a1bSJed Brown 
1612c4762a1bSJed Brown       ierr = PetscMemoryGetCurrentUsage(&bytes);CHKERRQ(ierr);
16137d3de750SJacob Faibussowitsch       ierr = PetscInfo(ts, "refinement loop %D: memory used %g\n", adaptIter, bytes);CHKERRQ(ierr);
1614c4762a1bSJed Brown       ierr = DMViewFromOptions(dm, NULL, "-initial_dm_view");CHKERRQ(ierr);
1615c4762a1bSJed Brown       ierr = VecViewFromOptions(X, NULL, "-initial_vec_view");CHKERRQ(ierr);
1616c4762a1bSJed Brown #if 0
1617c4762a1bSJed Brown       if (viewInitial) {
1618c4762a1bSJed Brown         PetscViewer viewer;
1619c4762a1bSJed Brown         char        buf[256];
1620c4762a1bSJed Brown         PetscBool   isHDF5, isVTK;
1621c4762a1bSJed Brown 
1622c4762a1bSJed Brown         ierr = PetscViewerCreate(comm,&viewer);CHKERRQ(ierr);
1623c4762a1bSJed Brown         ierr = PetscViewerSetType(viewer,PETSCVIEWERVTK);CHKERRQ(ierr);
1624c4762a1bSJed Brown         ierr = PetscViewerSetOptionsPrefix(viewer,"initial_");CHKERRQ(ierr);
1625c4762a1bSJed Brown         ierr = PetscViewerSetFromOptions(viewer);CHKERRQ(ierr);
1626c4762a1bSJed Brown         ierr = PetscObjectTypeCompare((PetscObject)viewer,PETSCVIEWERHDF5,&isHDF5);CHKERRQ(ierr);
1627c4762a1bSJed Brown         ierr = PetscObjectTypeCompare((PetscObject)viewer,PETSCVIEWERVTK,&isVTK);CHKERRQ(ierr);
1628c4762a1bSJed Brown         if (isHDF5) {
1629c4762a1bSJed Brown           ierr = PetscSNPrintf(buf, 256, "ex11-initial-%d.h5", adaptIter);CHKERRQ(ierr);
1630c4762a1bSJed Brown         } else if (isVTK) {
1631c4762a1bSJed Brown           ierr = PetscSNPrintf(buf, 256, "ex11-initial-%d.vtu", adaptIter);CHKERRQ(ierr);
1632c4762a1bSJed Brown           ierr = PetscViewerPushFormat(viewer,PETSC_VIEWER_VTK_VTU);CHKERRQ(ierr);
1633c4762a1bSJed Brown         }
1634c4762a1bSJed Brown         ierr = PetscViewerFileSetMode(viewer,FILE_MODE_WRITE);CHKERRQ(ierr);
1635c4762a1bSJed Brown         ierr = PetscViewerFileSetName(viewer,buf);CHKERRQ(ierr);
1636c4762a1bSJed Brown         if (isHDF5) {
1637c4762a1bSJed Brown           ierr = DMView(dm,viewer);CHKERRQ(ierr);
1638c4762a1bSJed Brown           ierr = PetscViewerFileSetMode(viewer,FILE_MODE_UPDATE);CHKERRQ(ierr);
1639c4762a1bSJed Brown         }
1640c4762a1bSJed Brown         ierr = VecView(X,viewer);CHKERRQ(ierr);
1641c4762a1bSJed Brown         ierr = PetscViewerDestroy(&viewer);CHKERRQ(ierr);
1642c4762a1bSJed Brown       }
1643c4762a1bSJed Brown #endif
1644c4762a1bSJed Brown 
1645c4762a1bSJed Brown       ierr = adaptToleranceFVM(fvm, ts, X, refineTag, coarsenTag, user, &tsNew, NULL);CHKERRQ(ierr);
1646c4762a1bSJed Brown       if (!tsNew) {
1647c4762a1bSJed Brown         break;
1648c4762a1bSJed Brown       } else {
1649c4762a1bSJed Brown         ierr = DMDestroy(&dm);CHKERRQ(ierr);
1650c4762a1bSJed Brown         ierr = VecDestroy(&X);CHKERRQ(ierr);
1651c4762a1bSJed Brown         ierr = TSDestroy(&ts);CHKERRQ(ierr);
1652c4762a1bSJed Brown         ts   = tsNew;
1653c4762a1bSJed Brown         ierr = TSGetDM(ts,&dm);CHKERRQ(ierr);
1654c4762a1bSJed Brown         ierr = PetscObjectReference((PetscObject)dm);CHKERRQ(ierr);
1655c4762a1bSJed Brown         ierr = DMCreateGlobalVector(dm,&X);CHKERRQ(ierr);
1656c4762a1bSJed Brown         ierr = PetscObjectSetName((PetscObject) X, "solution");CHKERRQ(ierr);
1657c4762a1bSJed Brown         ierr = SetInitialCondition(dm, X, user);CHKERRQ(ierr);
1658c4762a1bSJed Brown       }
1659c4762a1bSJed Brown     }
1660c4762a1bSJed Brown     /* restore original limiter */
1661c4762a1bSJed Brown     ierr = PetscFVSetLimiter(fvm, limiter);CHKERRQ(ierr);
1662c4762a1bSJed Brown   }
1663c4762a1bSJed Brown 
16643e9753d6SMatthew G. Knepley   ierr = DMConvert(dm, DMPLEX, &plex);CHKERRQ(ierr);
1665c4762a1bSJed Brown   if (vtkCellGeom) {
1666c4762a1bSJed Brown     DM  dmCell;
1667c4762a1bSJed Brown     Vec cellgeom, partition;
1668c4762a1bSJed Brown 
16693e9753d6SMatthew G. Knepley     ierr = DMPlexGetGeometryFVM(plex, NULL, &cellgeom, NULL);CHKERRQ(ierr);
1670c4762a1bSJed Brown     ierr = OutputVTK(dm, "ex11-cellgeom.vtk", &viewer);CHKERRQ(ierr);
1671c4762a1bSJed Brown     ierr = VecView(cellgeom, viewer);CHKERRQ(ierr);
1672c4762a1bSJed Brown     ierr = PetscViewerDestroy(&viewer);CHKERRQ(ierr);
1673c4762a1bSJed Brown     ierr = CreatePartitionVec(dm, &dmCell, &partition);CHKERRQ(ierr);
1674c4762a1bSJed Brown     ierr = OutputVTK(dmCell, "ex11-partition.vtk", &viewer);CHKERRQ(ierr);
1675c4762a1bSJed Brown     ierr = VecView(partition, viewer);CHKERRQ(ierr);
1676c4762a1bSJed Brown     ierr = PetscViewerDestroy(&viewer);CHKERRQ(ierr);
1677c4762a1bSJed Brown     ierr = VecDestroy(&partition);CHKERRQ(ierr);
1678c4762a1bSJed Brown     ierr = DMDestroy(&dmCell);CHKERRQ(ierr);
1679c4762a1bSJed Brown   }
1680c4762a1bSJed Brown   /* collect max maxspeed from all processes -- todo */
16813e9753d6SMatthew G. Knepley   ierr = DMPlexGetGeometryFVM(plex, NULL, NULL, &minRadius);CHKERRQ(ierr);
16823e9753d6SMatthew G. Knepley   ierr = DMDestroy(&plex);CHKERRQ(ierr);
1683ffc4695bSBarry Smith   ierr = MPI_Allreduce(&phys->maxspeed,&mod->maxspeed,1,MPIU_REAL,MPIU_MAX,PetscObjectComm((PetscObject)ts));CHKERRMPI(ierr);
16842c71b3e2SJacob Faibussowitsch   PetscCheckFalse(mod->maxspeed <= 0,comm,PETSC_ERR_ARG_WRONGSTATE,"Physics '%s' did not set maxspeed",physname);
1685c4762a1bSJed Brown   dt   = cfl * minRadius / mod->maxspeed;
1686c4762a1bSJed Brown   ierr = TSSetTimeStep(ts,dt);CHKERRQ(ierr);
1687c4762a1bSJed Brown   ierr = TSSetFromOptions(ts);CHKERRQ(ierr);
1688c4762a1bSJed Brown   if (!useAMR) {
1689c4762a1bSJed Brown     ierr = TSSolve(ts,X);CHKERRQ(ierr);
1690c4762a1bSJed Brown     ierr = TSGetSolveTime(ts,&ftime);CHKERRQ(ierr);
1691c4762a1bSJed Brown     ierr = TSGetStepNumber(ts,&nsteps);CHKERRQ(ierr);
1692c4762a1bSJed Brown   } else {
1693c4762a1bSJed Brown     PetscReal finalTime;
1694c4762a1bSJed Brown     PetscInt  adaptIter;
1695c4762a1bSJed Brown     TS        tsNew = NULL;
1696c4762a1bSJed Brown     Vec       solNew = NULL;
1697c4762a1bSJed Brown 
1698c4762a1bSJed Brown     ierr   = TSGetMaxTime(ts,&finalTime);CHKERRQ(ierr);
1699c4762a1bSJed Brown     ierr   = TSSetMaxSteps(ts,adaptInterval);CHKERRQ(ierr);
1700c4762a1bSJed Brown     ierr   = TSSolve(ts,X);CHKERRQ(ierr);
1701c4762a1bSJed Brown     ierr   = TSGetSolveTime(ts,&ftime);CHKERRQ(ierr);
1702c4762a1bSJed Brown     ierr   = TSGetStepNumber(ts,&nsteps);CHKERRQ(ierr);
1703c4762a1bSJed Brown     for (adaptIter = 0;ftime < finalTime;adaptIter++) {
1704c4762a1bSJed Brown       PetscLogDouble bytes;
1705c4762a1bSJed Brown 
1706c4762a1bSJed Brown       ierr = PetscMemoryGetCurrentUsage(&bytes);CHKERRQ(ierr);
17077d3de750SJacob Faibussowitsch       ierr = PetscInfo(ts, "AMR time step loop %D: memory used %g\n", adaptIter, bytes);CHKERRQ(ierr);
1708c4762a1bSJed Brown       ierr = PetscFVSetLimiter(fvm,noneLimiter);CHKERRQ(ierr);
1709c4762a1bSJed Brown       ierr = adaptToleranceFVM(fvm,ts,X,refineTag,coarsenTag,user,&tsNew,&solNew);CHKERRQ(ierr);
1710c4762a1bSJed Brown       ierr = PetscFVSetLimiter(fvm,limiter);CHKERRQ(ierr);
1711c4762a1bSJed Brown       if (tsNew) {
1712c4762a1bSJed Brown         ierr = PetscInfo(ts, "AMR used\n");CHKERRQ(ierr);
1713c4762a1bSJed Brown         ierr = DMDestroy(&dm);CHKERRQ(ierr);
1714c4762a1bSJed Brown         ierr = VecDestroy(&X);CHKERRQ(ierr);
1715c4762a1bSJed Brown         ierr = TSDestroy(&ts);CHKERRQ(ierr);
1716c4762a1bSJed Brown         ts   = tsNew;
1717c4762a1bSJed Brown         X    = solNew;
1718c4762a1bSJed Brown         ierr = TSSetFromOptions(ts);CHKERRQ(ierr);
1719c4762a1bSJed Brown         ierr = VecGetDM(X,&dm);CHKERRQ(ierr);
1720c4762a1bSJed Brown         ierr = PetscObjectReference((PetscObject)dm);CHKERRQ(ierr);
17213e9753d6SMatthew G. Knepley         ierr = DMConvert(dm, DMPLEX, &plex);CHKERRQ(ierr);
17223e9753d6SMatthew G. Knepley         ierr = DMPlexGetGeometryFVM(dm, NULL, NULL, &minRadius);CHKERRQ(ierr);
17233e9753d6SMatthew G. Knepley         ierr = DMDestroy(&plex);CHKERRQ(ierr);
1724ffc4695bSBarry Smith         ierr = MPI_Allreduce(&phys->maxspeed,&mod->maxspeed,1,MPIU_REAL,MPIU_MAX,PetscObjectComm((PetscObject)ts));CHKERRMPI(ierr);
17252c71b3e2SJacob Faibussowitsch         PetscCheckFalse(mod->maxspeed <= 0,comm,PETSC_ERR_ARG_WRONGSTATE,"Physics '%s' did not set maxspeed",physname);
1726c4762a1bSJed Brown         dt   = cfl * minRadius / mod->maxspeed;
1727c4762a1bSJed Brown         ierr = TSSetStepNumber(ts,nsteps);CHKERRQ(ierr);
1728c4762a1bSJed Brown         ierr = TSSetTime(ts,ftime);CHKERRQ(ierr);
1729c4762a1bSJed Brown         ierr = TSSetTimeStep(ts,dt);CHKERRQ(ierr);
1730c4762a1bSJed Brown       } else {
1731c4762a1bSJed Brown         ierr = PetscInfo(ts, "AMR not used\n");CHKERRQ(ierr);
1732c4762a1bSJed Brown       }
1733c4762a1bSJed Brown       user->monitorStepOffset = nsteps;
1734c4762a1bSJed Brown       ierr = TSSetMaxSteps(ts,nsteps+adaptInterval);CHKERRQ(ierr);
1735c4762a1bSJed Brown       ierr = TSSolve(ts,X);CHKERRQ(ierr);
1736c4762a1bSJed Brown       ierr = TSGetSolveTime(ts,&ftime);CHKERRQ(ierr);
1737c4762a1bSJed Brown       ierr = TSGetStepNumber(ts,&nsteps);CHKERRQ(ierr);
1738c4762a1bSJed Brown     }
1739c4762a1bSJed Brown   }
1740c4762a1bSJed Brown   ierr = TSGetConvergedReason(ts,&reason);CHKERRQ(ierr);
1741c4762a1bSJed Brown   ierr = PetscPrintf(PETSC_COMM_WORLD,"%s at time %g after %D steps\n",TSConvergedReasons[reason],(double)ftime,nsteps);CHKERRQ(ierr);
1742c4762a1bSJed Brown   ierr = TSDestroy(&ts);CHKERRQ(ierr);
1743c4762a1bSJed Brown 
1744c4762a1bSJed Brown   ierr = VecTaggerDestroy(&refineTag);CHKERRQ(ierr);
1745c4762a1bSJed Brown   ierr = VecTaggerDestroy(&coarsenTag);CHKERRQ(ierr);
1746c4762a1bSJed Brown   ierr = PetscFunctionListDestroy(&PhysicsList);CHKERRQ(ierr);
17478d2c18caSMukkund Sunjii   ierr = PetscFunctionListDestroy(&PhysicsRiemannList_SW);CHKERRQ(ierr);
1748c4762a1bSJed Brown   ierr = FunctionalLinkDestroy(&user->model->functionalRegistry);CHKERRQ(ierr);
1749c4762a1bSJed Brown   ierr = PetscFree(user->model->functionalMonitored);CHKERRQ(ierr);
1750c4762a1bSJed Brown   ierr = PetscFree(user->model->functionalCall);CHKERRQ(ierr);
1751c4762a1bSJed Brown   ierr = PetscFree(user->model->physics->data);CHKERRQ(ierr);
1752c4762a1bSJed Brown   ierr = PetscFree(user->model->physics);CHKERRQ(ierr);
1753c4762a1bSJed Brown   ierr = PetscFree(user->model);CHKERRQ(ierr);
1754c4762a1bSJed Brown   ierr = PetscFree(user);CHKERRQ(ierr);
1755c4762a1bSJed Brown   ierr = VecDestroy(&X);CHKERRQ(ierr);
1756c4762a1bSJed Brown   ierr = PetscLimiterDestroy(&limiter);CHKERRQ(ierr);
1757c4762a1bSJed Brown   ierr = PetscLimiterDestroy(&noneLimiter);CHKERRQ(ierr);
1758c4762a1bSJed Brown   ierr = PetscFVDestroy(&fvm);CHKERRQ(ierr);
1759c4762a1bSJed Brown   ierr = DMDestroy(&dm);CHKERRQ(ierr);
1760c4762a1bSJed Brown   ierr = PetscFinalize();
1761c4762a1bSJed Brown   return ierr;
1762c4762a1bSJed Brown }
1763c4762a1bSJed Brown 
1764c4762a1bSJed Brown /* Godunov fluxs */
1765c4762a1bSJed Brown PetscScalar cvmgp_(PetscScalar *a, PetscScalar *b, PetscScalar *test)
1766c4762a1bSJed Brown {
1767c4762a1bSJed Brown     /* System generated locals */
1768c4762a1bSJed Brown     PetscScalar ret_val;
1769c4762a1bSJed Brown 
1770c4762a1bSJed Brown     if (PetscRealPart(*test) > 0.) {
1771c4762a1bSJed Brown         goto L10;
1772c4762a1bSJed Brown     }
1773c4762a1bSJed Brown     ret_val = *b;
1774c4762a1bSJed Brown     return ret_val;
1775c4762a1bSJed Brown L10:
1776c4762a1bSJed Brown     ret_val = *a;
1777c4762a1bSJed Brown     return ret_val;
1778c4762a1bSJed Brown } /* cvmgp_ */
1779c4762a1bSJed Brown 
1780c4762a1bSJed Brown PetscScalar cvmgm_(PetscScalar *a, PetscScalar *b, PetscScalar *test)
1781c4762a1bSJed Brown {
1782c4762a1bSJed Brown     /* System generated locals */
1783c4762a1bSJed Brown     PetscScalar ret_val;
1784c4762a1bSJed Brown 
1785c4762a1bSJed Brown     if (PetscRealPart(*test) < 0.) {
1786c4762a1bSJed Brown         goto L10;
1787c4762a1bSJed Brown     }
1788c4762a1bSJed Brown     ret_val = *b;
1789c4762a1bSJed Brown     return ret_val;
1790c4762a1bSJed Brown L10:
1791c4762a1bSJed Brown     ret_val = *a;
1792c4762a1bSJed Brown     return ret_val;
1793c4762a1bSJed Brown } /* cvmgm_ */
1794c4762a1bSJed Brown 
1795c4762a1bSJed Brown int riem1mdt( PetscScalar *gaml, PetscScalar *gamr, PetscScalar *rl, PetscScalar *pl,
1796c4762a1bSJed Brown               PetscScalar *uxl, PetscScalar *rr, PetscScalar *pr,
1797c4762a1bSJed Brown               PetscScalar *uxr, PetscScalar *rstarl, PetscScalar *rstarr, PetscScalar *
1798c4762a1bSJed Brown               pstar, PetscScalar *ustar)
1799c4762a1bSJed Brown {
1800c4762a1bSJed Brown     /* Initialized data */
1801c4762a1bSJed Brown 
1802c4762a1bSJed Brown     static PetscScalar smallp = 1e-8;
1803c4762a1bSJed Brown 
1804c4762a1bSJed Brown     /* System generated locals */
1805c4762a1bSJed Brown     int i__1;
1806c4762a1bSJed Brown     PetscScalar d__1, d__2;
1807c4762a1bSJed Brown 
1808c4762a1bSJed Brown     /* Local variables */
1809c4762a1bSJed Brown     static int i0;
1810c4762a1bSJed Brown     static PetscScalar cl, cr, wl, zl, wr, zr, pst, durl, skpr1, skpr2;
1811c4762a1bSJed Brown     static int iwave;
1812c4762a1bSJed Brown     static PetscScalar gascl4, gascr4, cstarl, dpstar, cstarr;
1813c4762a1bSJed Brown     /* static PetscScalar csqrl, csqrr, gascl1, gascl2, gascl3, gascr1, gascr2, gascr3; */
1814c4762a1bSJed Brown     static int iterno;
1815c4762a1bSJed Brown     static PetscScalar ustarl, ustarr, rarepr1, rarepr2;
1816c4762a1bSJed Brown 
1817c4762a1bSJed Brown     /* gascl1 = *gaml - 1.; */
1818c4762a1bSJed Brown     /* gascl2 = (*gaml + 1.) * .5; */
1819c4762a1bSJed Brown     /* gascl3 = gascl2 / *gaml; */
1820c4762a1bSJed Brown     gascl4 = 1. / (*gaml - 1.);
1821c4762a1bSJed Brown 
1822c4762a1bSJed Brown     /* gascr1 = *gamr - 1.; */
1823c4762a1bSJed Brown     /* gascr2 = (*gamr + 1.) * .5; */
1824c4762a1bSJed Brown     /* gascr3 = gascr2 / *gamr; */
1825c4762a1bSJed Brown     gascr4 = 1. / (*gamr - 1.);
1826c4762a1bSJed Brown     iterno = 10;
1827c4762a1bSJed Brown /*        find pstar: */
1828c4762a1bSJed Brown     cl = PetscSqrtScalar(*gaml * *pl / *rl);
1829c4762a1bSJed Brown     cr = PetscSqrtScalar(*gamr * *pr / *rr);
1830c4762a1bSJed Brown     wl = *rl * cl;
1831c4762a1bSJed Brown     wr = *rr * cr;
1832c4762a1bSJed Brown     /* csqrl = wl * wl; */
1833c4762a1bSJed Brown     /* csqrr = wr * wr; */
1834c4762a1bSJed Brown     *pstar = (wl * *pr + wr * *pl) / (wl + wr);
1835c4762a1bSJed Brown     *pstar = PetscMax(PetscRealPart(*pstar),PetscRealPart(smallp));
1836c4762a1bSJed Brown     pst = *pl / *pr;
1837c4762a1bSJed Brown     skpr1 = cr * (pst - 1.) * PetscSqrtScalar(2. / (*gamr * (*gamr - 1. + (*gamr + 1.) * pst)));
1838c4762a1bSJed Brown     d__1 = (*gamr - 1.) / (*gamr * 2.);
1839c4762a1bSJed Brown     rarepr2 = gascr4 * 2. * cr * (1. - PetscPowScalar(pst, d__1));
1840c4762a1bSJed Brown     pst = *pr / *pl;
1841c4762a1bSJed Brown     skpr2 = cl * (pst - 1.) * PetscSqrtScalar(2. / (*gaml * (*gaml - 1. + (*gaml + 1.) * pst)));
1842c4762a1bSJed Brown     d__1 = (*gaml - 1.) / (*gaml * 2.);
1843c4762a1bSJed Brown     rarepr1 = gascl4 * 2. * cl * (1. - PetscPowScalar(pst, d__1));
1844c4762a1bSJed Brown     durl = *uxr - *uxl;
1845c4762a1bSJed Brown     if (PetscRealPart(*pr) < PetscRealPart(*pl)) {
1846c4762a1bSJed Brown         if (PetscRealPart(durl) >= PetscRealPart(rarepr1)) {
1847c4762a1bSJed Brown             iwave = 100;
1848c4762a1bSJed Brown         } else if (PetscRealPart(durl) <= PetscRealPart(-skpr1)) {
1849c4762a1bSJed Brown             iwave = 300;
1850c4762a1bSJed Brown         } else {
1851c4762a1bSJed Brown             iwave = 400;
1852c4762a1bSJed Brown         }
1853c4762a1bSJed Brown     } else {
1854c4762a1bSJed Brown         if (PetscRealPart(durl) >= PetscRealPart(rarepr2)) {
1855c4762a1bSJed Brown             iwave = 100;
1856c4762a1bSJed Brown         } else if (PetscRealPart(durl) <= PetscRealPart(-skpr2)) {
1857c4762a1bSJed Brown             iwave = 300;
1858c4762a1bSJed Brown         } else {
1859c4762a1bSJed Brown             iwave = 200;
1860c4762a1bSJed Brown         }
1861c4762a1bSJed Brown     }
1862c4762a1bSJed Brown     if (iwave == 100) {
1863c4762a1bSJed Brown /*     1-wave: rarefaction wave, 3-wave: rarefaction wave */
1864c4762a1bSJed Brown /*     case (100) */
1865c4762a1bSJed Brown         i__1 = iterno;
1866c4762a1bSJed Brown         for (i0 = 1; i0 <= i__1; ++i0) {
1867c4762a1bSJed Brown             d__1 = *pstar / *pl;
1868c4762a1bSJed Brown             d__2 = 1. / *gaml;
1869c4762a1bSJed Brown             *rstarl = *rl * PetscPowScalar(d__1, d__2);
1870c4762a1bSJed Brown             cstarl = PetscSqrtScalar(*gaml * *pstar / *rstarl);
1871c4762a1bSJed Brown             ustarl = *uxl - gascl4 * 2. * (cstarl - cl);
1872c4762a1bSJed Brown             zl = *rstarl * cstarl;
1873c4762a1bSJed Brown             d__1 = *pstar / *pr;
1874c4762a1bSJed Brown             d__2 = 1. / *gamr;
1875c4762a1bSJed Brown             *rstarr = *rr * PetscPowScalar(d__1, d__2);
1876c4762a1bSJed Brown             cstarr = PetscSqrtScalar(*gamr * *pstar / *rstarr);
1877c4762a1bSJed Brown             ustarr = *uxr + gascr4 * 2. * (cstarr - cr);
1878c4762a1bSJed Brown             zr = *rstarr * cstarr;
1879c4762a1bSJed Brown             dpstar = zl * zr * (ustarr - ustarl) / (zl + zr);
1880c4762a1bSJed Brown             *pstar -= dpstar;
1881c4762a1bSJed Brown             *pstar = PetscMax(PetscRealPart(*pstar),PetscRealPart(smallp));
1882c4762a1bSJed Brown             if (PetscAbsScalar(dpstar) / PetscRealPart(*pstar) <= 1e-8) {
1883c4762a1bSJed Brown #if 0
1884c4762a1bSJed Brown         break;
1885c4762a1bSJed Brown #endif
1886c4762a1bSJed Brown             }
1887c4762a1bSJed Brown         }
1888c4762a1bSJed Brown /*     1-wave: shock wave, 3-wave: rarefaction wave */
1889c4762a1bSJed Brown     } else if (iwave == 200) {
1890c4762a1bSJed Brown /*     case (200) */
1891c4762a1bSJed Brown         i__1 = iterno;
1892c4762a1bSJed Brown         for (i0 = 1; i0 <= i__1; ++i0) {
1893c4762a1bSJed Brown             pst = *pstar / *pl;
1894c4762a1bSJed Brown             ustarl = *uxl - (pst - 1.) * cl * PetscSqrtScalar(2. / (*gaml * (*gaml - 1. + (*gaml + 1.) * pst)));
1895c4762a1bSJed Brown             zl = *pl / cl * PetscSqrtScalar(*gaml * 2. * (*gaml - 1. + (*gaml + 1.) * pst)) * (*gaml - 1. + (*gaml + 1.) * pst) / (*gaml * 3. - 1. + (*gaml + 1.) * pst);
1896c4762a1bSJed Brown             d__1 = *pstar / *pr;
1897c4762a1bSJed Brown             d__2 = 1. / *gamr;
1898c4762a1bSJed Brown             *rstarr = *rr * PetscPowScalar(d__1, d__2);
1899c4762a1bSJed Brown             cstarr = PetscSqrtScalar(*gamr * *pstar / *rstarr);
1900c4762a1bSJed Brown             zr = *rstarr * cstarr;
1901c4762a1bSJed Brown             ustarr = *uxr + gascr4 * 2. * (cstarr - cr);
1902c4762a1bSJed Brown             dpstar = zl * zr * (ustarr - ustarl) / (zl + zr);
1903c4762a1bSJed Brown             *pstar -= dpstar;
1904c4762a1bSJed Brown             *pstar = PetscMax(PetscRealPart(*pstar),PetscRealPart(smallp));
1905c4762a1bSJed Brown             if (PetscAbsScalar(dpstar) / PetscRealPart(*pstar) <= 1e-8) {
1906c4762a1bSJed Brown #if 0
1907c4762a1bSJed Brown         break;
1908c4762a1bSJed Brown #endif
1909c4762a1bSJed Brown             }
1910c4762a1bSJed Brown         }
1911c4762a1bSJed Brown /*     1-wave: shock wave, 3-wave: shock */
1912c4762a1bSJed Brown     } else if (iwave == 300) {
1913c4762a1bSJed Brown /*     case (300) */
1914c4762a1bSJed Brown         i__1 = iterno;
1915c4762a1bSJed Brown         for (i0 = 1; i0 <= i__1; ++i0) {
1916c4762a1bSJed Brown             pst = *pstar / *pl;
1917c4762a1bSJed Brown             ustarl = *uxl - (pst - 1.) * cl * PetscSqrtScalar(2. / (*gaml * (*gaml - 1. + (*gaml + 1.) * pst)));
1918c4762a1bSJed Brown             zl = *pl / cl * PetscSqrtScalar(*gaml * 2. * (*gaml - 1. + (*gaml + 1.) * pst)) * (*gaml - 1. + (*gaml + 1.) * pst) / (*gaml * 3. - 1. + (*gaml + 1.) * pst);
1919c4762a1bSJed Brown             pst = *pstar / *pr;
1920c4762a1bSJed Brown             ustarr = *uxr + (pst - 1.) * cr * PetscSqrtScalar(2. / (*gamr * (*gamr - 1. + (*gamr + 1.) * pst)));
1921c4762a1bSJed Brown             zr = *pr / cr * PetscSqrtScalar(*gamr * 2. * (*gamr - 1. + (*gamr + 1.) * pst)) * (*gamr - 1. + (*gamr + 1.) * pst) / (*gamr * 3. - 1. + (*gamr + 1.) * pst);
1922c4762a1bSJed Brown             dpstar = zl * zr * (ustarr - ustarl) / (zl + zr);
1923c4762a1bSJed Brown             *pstar -= dpstar;
1924c4762a1bSJed Brown             *pstar = PetscMax(PetscRealPart(*pstar),PetscRealPart(smallp));
1925c4762a1bSJed Brown             if (PetscAbsScalar(dpstar) / PetscRealPart(*pstar) <= 1e-8) {
1926c4762a1bSJed Brown #if 0
1927c4762a1bSJed Brown         break;
1928c4762a1bSJed Brown #endif
1929c4762a1bSJed Brown             }
1930c4762a1bSJed Brown         }
1931c4762a1bSJed Brown /*     1-wave: rarefaction wave, 3-wave: shock */
1932c4762a1bSJed Brown     } else if (iwave == 400) {
1933c4762a1bSJed Brown /*     case (400) */
1934c4762a1bSJed Brown         i__1 = iterno;
1935c4762a1bSJed Brown         for (i0 = 1; i0 <= i__1; ++i0) {
1936c4762a1bSJed Brown             d__1 = *pstar / *pl;
1937c4762a1bSJed Brown             d__2 = 1. / *gaml;
1938c4762a1bSJed Brown             *rstarl = *rl * PetscPowScalar(d__1, d__2);
1939c4762a1bSJed Brown             cstarl = PetscSqrtScalar(*gaml * *pstar / *rstarl);
1940c4762a1bSJed Brown             ustarl = *uxl - gascl4 * 2. * (cstarl - cl);
1941c4762a1bSJed Brown             zl = *rstarl * cstarl;
1942c4762a1bSJed Brown             pst = *pstar / *pr;
1943c4762a1bSJed Brown             ustarr = *uxr + (pst - 1.) * cr * PetscSqrtScalar(2. / (*gamr * (*gamr - 1. + (*gamr + 1.) * pst)));
1944c4762a1bSJed Brown             zr = *pr / cr * PetscSqrtScalar(*gamr * 2. * (*gamr - 1. + (*gamr + 1.) * pst)) * (*gamr - 1. + (*gamr + 1.) * pst) / (*gamr * 3. - 1. + (*gamr + 1.) * pst);
1945c4762a1bSJed Brown             dpstar = zl * zr * (ustarr - ustarl) / (zl + zr);
1946c4762a1bSJed Brown             *pstar -= dpstar;
1947c4762a1bSJed Brown             *pstar = PetscMax(PetscRealPart(*pstar),PetscRealPart(smallp));
1948c4762a1bSJed Brown             if (PetscAbsScalar(dpstar) / PetscRealPart(*pstar) <= 1e-8) {
1949c4762a1bSJed Brown #if 0
1950c4762a1bSJed Brown               break;
1951c4762a1bSJed Brown #endif
1952c4762a1bSJed Brown             }
1953c4762a1bSJed Brown         }
1954c4762a1bSJed Brown     }
1955c4762a1bSJed Brown 
1956c4762a1bSJed Brown     *ustar = (zl * ustarr + zr * ustarl) / (zl + zr);
1957c4762a1bSJed Brown     if (PetscRealPart(*pstar) > PetscRealPart(*pl)) {
1958c4762a1bSJed Brown         pst = *pstar / *pl;
1959c4762a1bSJed Brown         *rstarl = ((*gaml + 1.) * pst + *gaml - 1.) / ((*gaml - 1.) * pst + *
1960c4762a1bSJed Brown                 gaml + 1.) * *rl;
1961c4762a1bSJed Brown     }
1962c4762a1bSJed Brown     if (PetscRealPart(*pstar) > PetscRealPart(*pr)) {
1963c4762a1bSJed Brown         pst = *pstar / *pr;
1964c4762a1bSJed Brown         *rstarr = ((*gamr + 1.) * pst + *gamr - 1.) / ((*gamr - 1.) * pst + *
1965c4762a1bSJed Brown                 gamr + 1.) * *rr;
1966c4762a1bSJed Brown     }
1967c4762a1bSJed Brown     return iwave;
1968c4762a1bSJed Brown }
1969c4762a1bSJed Brown 
1970c4762a1bSJed Brown PetscScalar sign(PetscScalar x)
1971c4762a1bSJed Brown {
1972c4762a1bSJed Brown     if (PetscRealPart(x) > 0) return 1.0;
1973c4762a1bSJed Brown     if (PetscRealPart(x) < 0) return -1.0;
1974c4762a1bSJed Brown     return 0.0;
1975c4762a1bSJed Brown }
1976c4762a1bSJed Brown /*        Riemann Solver */
1977c4762a1bSJed Brown /* -------------------------------------------------------------------- */
1978c4762a1bSJed Brown int riemannsolver(PetscScalar *xcen, PetscScalar *xp,
1979c4762a1bSJed Brown                    PetscScalar *dtt, PetscScalar *rl, PetscScalar *uxl, PetscScalar *pl,
1980c4762a1bSJed Brown                    PetscScalar *utl, PetscScalar *ubl, PetscScalar *gaml, PetscScalar *rho1l,
1981c4762a1bSJed Brown                    PetscScalar *rr, PetscScalar *uxr, PetscScalar *pr, PetscScalar *utr,
1982c4762a1bSJed Brown                    PetscScalar *ubr, PetscScalar *gamr, PetscScalar *rho1r, PetscScalar *rx,
1983c4762a1bSJed Brown                    PetscScalar *uxm, PetscScalar *px, PetscScalar *utx, PetscScalar *ubx,
1984c4762a1bSJed Brown                    PetscScalar *gam, PetscScalar *rho1)
1985c4762a1bSJed Brown {
1986c4762a1bSJed Brown     /* System generated locals */
1987c4762a1bSJed Brown     PetscScalar d__1, d__2;
1988c4762a1bSJed Brown 
1989c4762a1bSJed Brown     /* Local variables */
1990c4762a1bSJed Brown     static PetscScalar s, c0, p0, r0, u0, w0, x0, x2, ri, cx, sgn0, wsp0, gasc1, gasc2, gasc3, gasc4;
1991c4762a1bSJed Brown     static PetscScalar cstar, pstar, rstar, ustar, xstar, wspst, ushock, streng, rstarl, rstarr, rstars;
1992c4762a1bSJed Brown     int iwave;
1993c4762a1bSJed Brown 
1994c4762a1bSJed Brown     if (*rl == *rr && *pr == *pl && *uxl == *uxr && *gaml == *gamr) {
1995c4762a1bSJed Brown         *rx = *rl;
1996c4762a1bSJed Brown         *px = *pl;
1997c4762a1bSJed Brown         *uxm = *uxl;
1998c4762a1bSJed Brown         *gam = *gaml;
1999c4762a1bSJed Brown         x2 = *xcen + *uxm * *dtt;
2000c4762a1bSJed Brown 
2001c4762a1bSJed Brown         if (PetscRealPart(*xp) >= PetscRealPart(x2)) {
2002c4762a1bSJed Brown             *utx = *utr;
2003c4762a1bSJed Brown             *ubx = *ubr;
2004c4762a1bSJed Brown             *rho1 = *rho1r;
2005c4762a1bSJed Brown         } else {
2006c4762a1bSJed Brown             *utx = *utl;
2007c4762a1bSJed Brown             *ubx = *ubl;
2008c4762a1bSJed Brown             *rho1 = *rho1l;
2009c4762a1bSJed Brown         }
2010c4762a1bSJed Brown         return 0;
2011c4762a1bSJed Brown     }
2012c4762a1bSJed Brown     iwave = riem1mdt(gaml, gamr, rl, pl, uxl, rr, pr, uxr, &rstarl, &rstarr, &pstar, &ustar);
2013c4762a1bSJed Brown 
2014c4762a1bSJed Brown     x2 = *xcen + ustar * *dtt;
2015c4762a1bSJed Brown     d__1 = *xp - x2;
2016c4762a1bSJed Brown     sgn0 = sign(d__1);
2017c4762a1bSJed Brown /*            x is in 3-wave if sgn0 = 1 */
2018c4762a1bSJed Brown /*            x is in 1-wave if sgn0 = -1 */
2019c4762a1bSJed Brown     r0 = cvmgm_(rl, rr, &sgn0);
2020c4762a1bSJed Brown     p0 = cvmgm_(pl, pr, &sgn0);
2021c4762a1bSJed Brown     u0 = cvmgm_(uxl, uxr, &sgn0);
2022c4762a1bSJed Brown     *gam = cvmgm_(gaml, gamr, &sgn0);
2023c4762a1bSJed Brown     gasc1 = *gam - 1.;
2024c4762a1bSJed Brown     gasc2 = (*gam + 1.) * .5;
2025c4762a1bSJed Brown     gasc3 = gasc2 / *gam;
2026c4762a1bSJed Brown     gasc4 = 1. / (*gam - 1.);
2027c4762a1bSJed Brown     c0 = PetscSqrtScalar(*gam * p0 / r0);
2028c4762a1bSJed Brown     streng = pstar - p0;
2029c4762a1bSJed Brown     w0 = *gam * r0 * p0 * (gasc3 * streng / p0 + 1.);
2030c4762a1bSJed Brown     rstars = r0 / (1. - r0 * streng / w0);
2031c4762a1bSJed Brown     d__1 = p0 / pstar;
2032c4762a1bSJed Brown     d__2 = -1. / *gam;
2033c4762a1bSJed Brown     rstarr = r0 * PetscPowScalar(d__1, d__2);
2034c4762a1bSJed Brown     rstar = cvmgm_(&rstarr, &rstars, &streng);
2035c4762a1bSJed Brown     w0 = PetscSqrtScalar(w0);
2036c4762a1bSJed Brown     cstar = PetscSqrtScalar(*gam * pstar / rstar);
2037c4762a1bSJed Brown     wsp0 = u0 + sgn0 * c0;
2038c4762a1bSJed Brown     wspst = ustar + sgn0 * cstar;
2039c4762a1bSJed Brown     ushock = ustar + sgn0 * w0 / rstar;
2040c4762a1bSJed Brown     wspst = cvmgp_(&ushock, &wspst, &streng);
2041c4762a1bSJed Brown     wsp0 = cvmgp_(&ushock, &wsp0, &streng);
2042c4762a1bSJed Brown     x0 = *xcen + wsp0 * *dtt;
2043c4762a1bSJed Brown     xstar = *xcen + wspst * *dtt;
2044c4762a1bSJed Brown /*           using gas formula to evaluate rarefaction wave */
2045c4762a1bSJed Brown /*            ri : reiman invariant */
2046c4762a1bSJed Brown     ri = u0 - sgn0 * 2. * gasc4 * c0;
2047c4762a1bSJed Brown     cx = sgn0 * .5 * gasc1 / gasc2 * ((*xp - *xcen) / *dtt - ri);
2048c4762a1bSJed Brown     *uxm = ri + sgn0 * 2. * gasc4 * cx;
2049c4762a1bSJed Brown     s = p0 / PetscPowScalar(r0, *gam);
2050c4762a1bSJed Brown     d__1 = cx * cx / (*gam * s);
2051c4762a1bSJed Brown     *rx = PetscPowScalar(d__1, gasc4);
2052c4762a1bSJed Brown     *px = cx * cx * *rx / *gam;
2053c4762a1bSJed Brown     d__1 = sgn0 * (x0 - *xp);
2054c4762a1bSJed Brown     *rx = cvmgp_(rx, &r0, &d__1);
2055c4762a1bSJed Brown     d__1 = sgn0 * (x0 - *xp);
2056c4762a1bSJed Brown     *px = cvmgp_(px, &p0, &d__1);
2057c4762a1bSJed Brown     d__1 = sgn0 * (x0 - *xp);
2058c4762a1bSJed Brown     *uxm = cvmgp_(uxm, &u0, &d__1);
2059c4762a1bSJed Brown     d__1 = sgn0 * (xstar - *xp);
2060c4762a1bSJed Brown     *rx = cvmgm_(rx, &rstar, &d__1);
2061c4762a1bSJed Brown     d__1 = sgn0 * (xstar - *xp);
2062c4762a1bSJed Brown     *px = cvmgm_(px, &pstar, &d__1);
2063c4762a1bSJed Brown     d__1 = sgn0 * (xstar - *xp);
2064c4762a1bSJed Brown     *uxm = cvmgm_(uxm, &ustar, &d__1);
2065c4762a1bSJed Brown     if (PetscRealPart(*xp) >= PetscRealPart(x2)) {
2066c4762a1bSJed Brown         *utx = *utr;
2067c4762a1bSJed Brown         *ubx = *ubr;
2068c4762a1bSJed Brown         *rho1 = *rho1r;
2069c4762a1bSJed Brown     } else {
2070c4762a1bSJed Brown         *utx = *utl;
2071c4762a1bSJed Brown         *ubx = *ubl;
2072c4762a1bSJed Brown         *rho1 = *rho1l;
2073c4762a1bSJed Brown     }
2074c4762a1bSJed Brown     return iwave;
2075c4762a1bSJed Brown }
2076c4762a1bSJed Brown int godunovflux( const PetscScalar *ul, const PetscScalar *ur,
2077c4762a1bSJed Brown                  PetscScalar *flux, const PetscReal *nn, const int *ndim,
2078c4762a1bSJed Brown                  const PetscReal *gamma)
2079c4762a1bSJed Brown {
2080c4762a1bSJed Brown     /* System generated locals */
2081c4762a1bSJed Brown   int i__1,iwave;
2082c4762a1bSJed Brown     PetscScalar d__1, d__2, d__3;
2083c4762a1bSJed Brown 
2084c4762a1bSJed Brown     /* Local variables */
2085c4762a1bSJed Brown     static int k;
2086c4762a1bSJed Brown     static PetscScalar bn[3], fn, ft, tg[3], pl, rl, pm, pr, rr, xp, ubl, ubm,
2087c4762a1bSJed Brown             ubr, dtt, unm, tmp, utl, utm, uxl, utr, uxr, gaml, gamm, gamr,
2088c4762a1bSJed Brown             xcen, rhom, rho1l, rho1m, rho1r;
2089c4762a1bSJed Brown 
2090c4762a1bSJed Brown     /* Function Body */
2091c4762a1bSJed Brown     xcen = 0.;
2092c4762a1bSJed Brown     xp = 0.;
2093c4762a1bSJed Brown     i__1 = *ndim;
2094c4762a1bSJed Brown     for (k = 1; k <= i__1; ++k) {
2095c4762a1bSJed Brown         tg[k - 1] = 0.;
2096c4762a1bSJed Brown         bn[k - 1] = 0.;
2097c4762a1bSJed Brown     }
2098c4762a1bSJed Brown     dtt = 1.;
2099c4762a1bSJed Brown     if (*ndim == 3) {
2100a795f3e7SBarry Smith         if (nn[0] == 0. && nn[1] == 0.) {
2101c4762a1bSJed Brown             tg[0] = 1.;
2102c4762a1bSJed Brown         } else {
2103a795f3e7SBarry Smith             tg[0] = -nn[1];
2104a795f3e7SBarry Smith             tg[1] = nn[0];
2105c4762a1bSJed Brown         }
2106c4762a1bSJed Brown /*           tmp=dsqrt(tg(1)**2+tg(2)**2) */
2107c4762a1bSJed Brown /*           tg=tg/tmp */
2108a795f3e7SBarry Smith         bn[0] = -nn[2] * tg[1];
2109a795f3e7SBarry Smith         bn[1] = nn[2] * tg[0];
2110a795f3e7SBarry Smith         bn[2] = nn[0] * tg[1] - nn[1] * tg[0];
2111c4762a1bSJed Brown /* Computing 2nd power */
2112c4762a1bSJed Brown         d__1 = bn[0];
2113c4762a1bSJed Brown /* Computing 2nd power */
2114c4762a1bSJed Brown         d__2 = bn[1];
2115c4762a1bSJed Brown /* Computing 2nd power */
2116c4762a1bSJed Brown         d__3 = bn[2];
2117c4762a1bSJed Brown         tmp = PetscSqrtScalar(d__1 * d__1 + d__2 * d__2 + d__3 * d__3);
2118c4762a1bSJed Brown         i__1 = *ndim;
2119c4762a1bSJed Brown         for (k = 1; k <= i__1; ++k) {
2120c4762a1bSJed Brown             bn[k - 1] /= tmp;
2121c4762a1bSJed Brown         }
2122c4762a1bSJed Brown     } else if (*ndim == 2) {
2123a795f3e7SBarry Smith         tg[0] = -nn[1];
2124a795f3e7SBarry Smith         tg[1] = nn[0];
2125c4762a1bSJed Brown /*           tmp=dsqrt(tg(1)**2+tg(2)**2) */
2126c4762a1bSJed Brown /*           tg=tg/tmp */
2127c4762a1bSJed Brown         bn[0] = 0.;
2128c4762a1bSJed Brown         bn[1] = 0.;
2129c4762a1bSJed Brown         bn[2] = 1.;
2130c4762a1bSJed Brown     }
2131a795f3e7SBarry Smith     rl = ul[0];
2132a795f3e7SBarry Smith     rr = ur[0];
2133c4762a1bSJed Brown     uxl = 0.;
2134c4762a1bSJed Brown     uxr = 0.;
2135c4762a1bSJed Brown     utl = 0.;
2136c4762a1bSJed Brown     utr = 0.;
2137c4762a1bSJed Brown     ubl = 0.;
2138c4762a1bSJed Brown     ubr = 0.;
2139c4762a1bSJed Brown     i__1 = *ndim;
2140c4762a1bSJed Brown     for (k = 1; k <= i__1; ++k) {
2141a795f3e7SBarry Smith         uxl += ul[k] * nn[k-1];
2142a795f3e7SBarry Smith         uxr += ur[k] * nn[k-1];
2143a795f3e7SBarry Smith         utl += ul[k] * tg[k - 1];
2144a795f3e7SBarry Smith         utr += ur[k] * tg[k - 1];
2145a795f3e7SBarry Smith         ubl += ul[k] * bn[k - 1];
2146a795f3e7SBarry Smith         ubr += ur[k] * bn[k - 1];
2147c4762a1bSJed Brown     }
2148c4762a1bSJed Brown     uxl /= rl;
2149c4762a1bSJed Brown     uxr /= rr;
2150c4762a1bSJed Brown     utl /= rl;
2151c4762a1bSJed Brown     utr /= rr;
2152c4762a1bSJed Brown     ubl /= rl;
2153c4762a1bSJed Brown     ubr /= rr;
2154c4762a1bSJed Brown 
2155c4762a1bSJed Brown     gaml = *gamma;
2156c4762a1bSJed Brown     gamr = *gamma;
2157c4762a1bSJed Brown /* Computing 2nd power */
2158c4762a1bSJed Brown     d__1 = uxl;
2159c4762a1bSJed Brown /* Computing 2nd power */
2160c4762a1bSJed Brown     d__2 = utl;
2161c4762a1bSJed Brown /* Computing 2nd power */
2162c4762a1bSJed Brown     d__3 = ubl;
2163a795f3e7SBarry Smith     pl = (*gamma - 1.) * (ul[*ndim + 1] - rl * .5 * (d__1 * d__1 + d__2 * d__2 + d__3 * d__3));
2164c4762a1bSJed Brown /* Computing 2nd power */
2165c4762a1bSJed Brown     d__1 = uxr;
2166c4762a1bSJed Brown /* Computing 2nd power */
2167c4762a1bSJed Brown     d__2 = utr;
2168c4762a1bSJed Brown /* Computing 2nd power */
2169c4762a1bSJed Brown     d__3 = ubr;
2170a795f3e7SBarry Smith     pr = (*gamma - 1.) * (ur[*ndim + 1] - rr * .5 * (d__1 * d__1 + d__2 * d__2 + d__3 * d__3));
2171c4762a1bSJed Brown     rho1l = rl;
2172c4762a1bSJed Brown     rho1r = rr;
2173c4762a1bSJed Brown 
2174c4762a1bSJed Brown     iwave = riemannsolver(&xcen, &xp, &dtt, &rl, &uxl, &pl, &utl, &ubl, &gaml, &
2175c4762a1bSJed Brown                           rho1l, &rr, &uxr, &pr, &utr, &ubr, &gamr, &rho1r, &rhom, &unm, &
2176c4762a1bSJed Brown                           pm, &utm, &ubm, &gamm, &rho1m);
2177c4762a1bSJed Brown 
2178a795f3e7SBarry Smith     flux[0] = rhom * unm;
2179c4762a1bSJed Brown     fn = rhom * unm * unm + pm;
2180c4762a1bSJed Brown     ft = rhom * unm * utm;
2181c4762a1bSJed Brown /*           flux(2)=fn*nn(1)+ft*nn(2) */
2182c4762a1bSJed Brown /*           flux(3)=fn*tg(1)+ft*tg(2) */
2183a795f3e7SBarry Smith     flux[1] = fn * nn[0] + ft * tg[0];
2184a795f3e7SBarry Smith     flux[2] = fn * nn[1] + ft * tg[1];
2185c4762a1bSJed Brown /*           flux(2)=rhom*unm*(unm)+pm */
2186c4762a1bSJed Brown /*           flux(3)=rhom*(unm)*utm */
2187c4762a1bSJed Brown     if (*ndim == 3) {
2188a795f3e7SBarry Smith         flux[3] = rhom * unm * ubm;
2189c4762a1bSJed Brown     }
2190a795f3e7SBarry Smith     flux[*ndim + 1] = (rhom * .5 * (unm * unm + utm * utm + ubm * ubm) + gamm / (gamm - 1.) * pm) * unm;
2191c4762a1bSJed Brown     return iwave;
2192c4762a1bSJed Brown } /* godunovflux_ */
2193c4762a1bSJed Brown 
2194c4762a1bSJed Brown /* Subroutine to set up the initial conditions for the */
2195c4762a1bSJed Brown /* Shock Interface interaction or linear wave (Ravi Samtaney,Mark Adams). */
2196c4762a1bSJed Brown /* ----------------------------------------------------------------------- */
2197c4762a1bSJed Brown int projecteqstate(PetscReal wc[], const PetscReal ueq[], PetscReal lv[][3])
2198c4762a1bSJed Brown {
2199c4762a1bSJed Brown   int j,k;
2200c4762a1bSJed Brown /*      Wc=matmul(lv,Ueq) 3 vars */
2201c4762a1bSJed Brown   for (k = 0; k < 3; ++k) {
2202c4762a1bSJed Brown     wc[k] = 0.;
2203c4762a1bSJed Brown     for (j = 0; j < 3; ++j) {
2204c4762a1bSJed Brown       wc[k] += lv[k][j]*ueq[j];
2205c4762a1bSJed Brown     }
2206c4762a1bSJed Brown   }
2207c4762a1bSJed Brown   return 0;
2208c4762a1bSJed Brown }
2209c4762a1bSJed Brown /* ----------------------------------------------------------------------- */
2210c4762a1bSJed Brown int projecttoprim(PetscReal v[], const PetscReal wc[], PetscReal rv[][3])
2211c4762a1bSJed Brown {
2212c4762a1bSJed Brown   int k,j;
2213c4762a1bSJed Brown   /*      V=matmul(rv,WC) 3 vars */
2214c4762a1bSJed Brown   for (k = 0; k < 3; ++k) {
2215c4762a1bSJed Brown     v[k] = 0.;
2216c4762a1bSJed Brown     for (j = 0; j < 3; ++j) {
2217c4762a1bSJed Brown       v[k] += rv[k][j]*wc[j];
2218c4762a1bSJed Brown     }
2219c4762a1bSJed Brown   }
2220c4762a1bSJed Brown   return 0;
2221c4762a1bSJed Brown }
2222c4762a1bSJed Brown /* ---------------------------------------------------------------------- */
2223c4762a1bSJed Brown int eigenvectors(PetscReal rv[][3], PetscReal lv[][3], const PetscReal ueq[], PetscReal gamma)
2224c4762a1bSJed Brown {
2225c4762a1bSJed Brown   int j,k;
2226c4762a1bSJed Brown   PetscReal rho,csnd,p0;
2227c4762a1bSJed Brown   /* PetscScalar u; */
2228c4762a1bSJed Brown 
2229c4762a1bSJed Brown   for (k = 0; k < 3; ++k) for (j = 0; j < 3; ++j) { lv[k][j] = 0.; rv[k][j] = 0.; }
2230c4762a1bSJed Brown   rho = ueq[0];
2231c4762a1bSJed Brown   /* u = ueq[1]; */
2232c4762a1bSJed Brown   p0 = ueq[2];
2233c4762a1bSJed Brown   csnd = PetscSqrtReal(gamma * p0 / rho);
2234c4762a1bSJed Brown   lv[0][1] = rho * .5;
2235c4762a1bSJed Brown   lv[0][2] = -.5 / csnd;
2236c4762a1bSJed Brown   lv[1][0] = csnd;
2237c4762a1bSJed Brown   lv[1][2] = -1. / csnd;
2238c4762a1bSJed Brown   lv[2][1] = rho * .5;
2239c4762a1bSJed Brown   lv[2][2] = .5 / csnd;
2240c4762a1bSJed Brown   rv[0][0] = -1. / csnd;
2241c4762a1bSJed Brown   rv[1][0] = 1. / rho;
2242c4762a1bSJed Brown   rv[2][0] = -csnd;
2243c4762a1bSJed Brown   rv[0][1] = 1. / csnd;
2244c4762a1bSJed Brown   rv[0][2] = 1. / csnd;
2245c4762a1bSJed Brown   rv[1][2] = 1. / rho;
2246c4762a1bSJed Brown   rv[2][2] = csnd;
2247c4762a1bSJed Brown   return 0;
2248c4762a1bSJed Brown }
2249c4762a1bSJed Brown 
2250c4762a1bSJed Brown int initLinearWave(EulerNode *ux, const PetscReal gamma, const PetscReal coord[], const PetscReal Lx)
2251c4762a1bSJed Brown {
2252c4762a1bSJed Brown   PetscReal p0,u0,wcp[3],wc[3];
2253c4762a1bSJed Brown   PetscReal lv[3][3];
2254c4762a1bSJed Brown   PetscReal vp[3];
2255c4762a1bSJed Brown   PetscReal rv[3][3];
2256c4762a1bSJed Brown   PetscReal eps, ueq[3], rho0, twopi;
2257c4762a1bSJed Brown 
2258c4762a1bSJed Brown   /* Function Body */
2259c4762a1bSJed Brown   twopi = 2.*PETSC_PI;
2260c4762a1bSJed Brown   eps = 1e-4; /* perturbation */
2261c4762a1bSJed Brown   rho0 = 1e3;   /* density of water */
2262c4762a1bSJed Brown   p0 = 101325.; /* init pressure of 1 atm (?) */
2263c4762a1bSJed Brown   u0 = 0.;
2264c4762a1bSJed Brown   ueq[0] = rho0;
2265c4762a1bSJed Brown   ueq[1] = u0;
2266c4762a1bSJed Brown   ueq[2] = p0;
2267c4762a1bSJed Brown   /* Project initial state to characteristic variables */
2268c4762a1bSJed Brown   eigenvectors(rv, lv, ueq, gamma);
2269c4762a1bSJed Brown   projecteqstate(wc, ueq, lv);
2270c4762a1bSJed Brown   wcp[0] = wc[0];
2271c4762a1bSJed Brown   wcp[1] = wc[1];
2272c4762a1bSJed Brown   wcp[2] = wc[2] + eps * PetscCosReal(coord[0] * 2. * twopi / Lx);
2273c4762a1bSJed Brown   projecttoprim(vp, wcp, rv);
2274c4762a1bSJed Brown   ux->r = vp[0]; /* density */
2275c4762a1bSJed Brown   ux->ru[0] = vp[0] * vp[1]; /* x momentum */
2276c4762a1bSJed Brown   ux->ru[1] = 0.;
2277c4762a1bSJed Brown #if defined DIM > 2
2278c4762a1bSJed Brown   if (dim>2) ux->ru[2] = 0.;
2279c4762a1bSJed Brown #endif
2280c4762a1bSJed Brown   /* E = rho * e + rho * v^2/2 = p/(gam-1) + rho*v^2/2 */
2281c4762a1bSJed Brown   ux->E = vp[2]/(gamma - 1.) + 0.5*vp[0]*vp[1]*vp[1];
2282c4762a1bSJed Brown   return 0;
2283c4762a1bSJed Brown }
2284c4762a1bSJed Brown 
2285c4762a1bSJed Brown /*TEST
2286c4762a1bSJed Brown 
228730602db0SMatthew G. Knepley   testset:
228830602db0SMatthew G. Knepley     args: -dm_plex_adj_cone -dm_plex_adj_closure 0
228930602db0SMatthew G. Knepley 
229030602db0SMatthew G. Knepley     test:
229130602db0SMatthew G. Knepley       suffix: adv_2d_tri_0
229230602db0SMatthew G. Knepley       requires: triangle
229330602db0SMatthew G. Knepley       TODO: how did this ever get in main when there is no support for this
229430602db0SMatthew G. Knepley       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
229530602db0SMatthew G. Knepley 
229630602db0SMatthew G. Knepley     test:
229730602db0SMatthew G. Knepley       suffix: adv_2d_tri_1
229830602db0SMatthew G. Knepley       requires: triangle
229930602db0SMatthew G. Knepley       TODO: how did this ever get in main when there is no support for this
230030602db0SMatthew G. Knepley       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
230130602db0SMatthew G. Knepley 
230230602db0SMatthew G. Knepley     test:
230330602db0SMatthew G. Knepley       suffix: tut_1
230430602db0SMatthew G. Knepley       requires: exodusii
230530602db0SMatthew G. Knepley       nsize: 1
230630602db0SMatthew G. Knepley       args: -dm_plex_filename ${wPETSC_DIR}/share/petsc/datafiles/meshes/sevenside.exo
230730602db0SMatthew G. Knepley 
230830602db0SMatthew G. Knepley     test:
230930602db0SMatthew G. Knepley       suffix: tut_2
231030602db0SMatthew G. Knepley       requires: exodusii
231130602db0SMatthew G. Knepley       nsize: 1
231230602db0SMatthew G. Knepley       args: -dm_plex_filename ${wPETSC_DIR}/share/petsc/datafiles/meshes/sevenside.exo -ts_type rosw
231330602db0SMatthew G. Knepley 
231430602db0SMatthew G. Knepley     test:
231530602db0SMatthew G. Knepley       suffix: tut_3
231630602db0SMatthew G. Knepley       requires: exodusii
231730602db0SMatthew G. Knepley       nsize: 4
2318*e600fa54SMatthew G. Knepley       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
231930602db0SMatthew G. Knepley 
232030602db0SMatthew G. Knepley     test:
232130602db0SMatthew G. Knepley       suffix: tut_4
232230602db0SMatthew G. Knepley       requires: exodusii
232330602db0SMatthew G. Knepley       nsize: 4
2324*e600fa54SMatthew G. Knepley       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
232530602db0SMatthew G. Knepley 
232630602db0SMatthew G. Knepley   testset:
232730602db0SMatthew G. Knepley     args: -dm_plex_adj_cone -dm_plex_adj_closure 0 -dm_plex_simplex 0 -dm_plex_box_faces 1,1,1
232830602db0SMatthew G. Knepley 
2329c4762a1bSJed Brown     # 2D Advection 0-10
2330c4762a1bSJed Brown     test:
2331c4762a1bSJed Brown       suffix: 0
2332c4762a1bSJed Brown       requires: exodusii
233330602db0SMatthew G. Knepley       args: -ufv_vtk_interval 0 -dm_plex_filename ${wPETSC_DIR}/share/petsc/datafiles/meshes/sevenside.exo
2334c4762a1bSJed Brown 
2335c4762a1bSJed Brown     test:
2336c4762a1bSJed Brown       suffix: 1
2337c4762a1bSJed Brown       requires: exodusii
233830602db0SMatthew G. Knepley       args: -ufv_vtk_interval 0 -dm_plex_filename ${wPETSC_DIR}/share/petsc/datafiles/meshes/sevenside-quad-15.exo
2339c4762a1bSJed Brown 
2340c4762a1bSJed Brown     test:
2341c4762a1bSJed Brown       suffix: 2
2342c4762a1bSJed Brown       requires: exodusii
2343c4762a1bSJed Brown       nsize: 2
2344*e600fa54SMatthew G. Knepley       args: -dm_distribute_overlap 1 -ufv_vtk_interval 0 -dm_plex_filename ${wPETSC_DIR}/share/petsc/datafiles/meshes/sevenside.exo
2345c4762a1bSJed Brown 
2346c4762a1bSJed Brown     test:
2347c4762a1bSJed Brown       suffix: 3
2348c4762a1bSJed Brown       requires: exodusii
2349c4762a1bSJed Brown       nsize: 2
2350*e600fa54SMatthew G. Knepley       args: -dm_distribute_overlap 1 -ufv_vtk_interval 0 -dm_plex_filename ${wPETSC_DIR}/share/petsc/datafiles/meshes/sevenside-quad-15.exo
2351c4762a1bSJed Brown 
2352c4762a1bSJed Brown     test:
2353c4762a1bSJed Brown       suffix: 4
2354c4762a1bSJed Brown       requires: exodusii
2355c4762a1bSJed Brown       nsize: 8
2356*e600fa54SMatthew G. Knepley       args: -dm_distribute_overlap 1 -ufv_vtk_interval 0 -dm_plex_filename ${wPETSC_DIR}/share/petsc/datafiles/meshes/sevenside-quad.exo
2357c4762a1bSJed Brown 
2358c4762a1bSJed Brown     test:
2359c4762a1bSJed Brown       suffix: 5
2360c4762a1bSJed Brown       requires: exodusii
236130602db0SMatthew G. Knepley       args: -ufv_vtk_interval 0 -dm_plex_filename ${wPETSC_DIR}/share/petsc/datafiles/meshes/sevenside.exo -ts_type rosw -ts_adapt_reject_safety 1
2362c4762a1bSJed Brown 
2363c4762a1bSJed Brown     test:
2364c4762a1bSJed Brown       suffix: 7
2365c4762a1bSJed Brown       requires: exodusii
236630602db0SMatthew G. Knepley       args: -ufv_vtk_interval 0 -dm_plex_filename ${wPETSC_DIR}/share/petsc/datafiles/meshes/sevenside-quad-15.exo -dm_refine 1
2367c4762a1bSJed Brown 
2368c4762a1bSJed Brown     test:
2369c4762a1bSJed Brown       suffix: 8
2370c4762a1bSJed Brown       requires: exodusii
2371c4762a1bSJed Brown       nsize: 2
2372*e600fa54SMatthew G. Knepley       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
2373c4762a1bSJed Brown 
2374c4762a1bSJed Brown     test:
2375c4762a1bSJed Brown       suffix: 9
2376c4762a1bSJed Brown       requires: exodusii
2377c4762a1bSJed Brown       nsize: 8
2378*e600fa54SMatthew G. Knepley       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
2379c4762a1bSJed Brown 
2380c4762a1bSJed Brown     test:
2381c4762a1bSJed Brown       suffix: 10
2382c4762a1bSJed Brown       requires: exodusii
238330602db0SMatthew G. Knepley       args: -ufv_vtk_interval 0 -dm_plex_filename ${wPETSC_DIR}/share/petsc/datafiles/meshes/sevenside-quad.exo
2384c4762a1bSJed Brown 
2385c4762a1bSJed Brown     # 2D Shallow water
2386c4762a1bSJed Brown     test:
2387c4762a1bSJed Brown       suffix: sw_0
2388c4762a1bSJed Brown       requires: exodusii
238930602db0SMatthew G. Knepley       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
2390c4762a1bSJed Brown 
23918d2c18caSMukkund Sunjii     test:
23928d2c18caSMukkund Sunjii       suffix: sw_hll
239330602db0SMatthew G. Knepley       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
23948d2c18caSMukkund Sunjii 
2395c4762a1bSJed Brown     # 2D Advection: p4est
2396c4762a1bSJed Brown     test:
2397c4762a1bSJed Brown       suffix: p4est_advec_2d
2398c4762a1bSJed Brown       requires: p4est
239930602db0SMatthew G. Knepley       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
2400c4762a1bSJed Brown 
2401c4762a1bSJed Brown     # Advection in a box
2402c4762a1bSJed Brown     test:
2403c4762a1bSJed Brown       suffix: adv_2d_quad_0
2404c4762a1bSJed Brown       args: -ufv_vtk_interval 0 -dm_refine 3 -dm_plex_separate_marker -bc_inflow 1,2,4 -bc_outflow 3
2405c4762a1bSJed Brown 
2406c4762a1bSJed Brown     test:
2407c4762a1bSJed Brown       suffix: adv_2d_quad_1
2408c4762a1bSJed Brown       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
2409c4762a1bSJed Brown       timeoutfactor: 3
2410c4762a1bSJed Brown 
2411c4762a1bSJed Brown     test:
2412c4762a1bSJed Brown       suffix: adv_2d_quad_p4est_0
2413c4762a1bSJed Brown       requires: p4est
2414c4762a1bSJed Brown       args: -ufv_vtk_interval 0 -dm_refine 5 -dm_type p4est -dm_plex_separate_marker -bc_inflow 1,2,4 -bc_outflow 3
2415c4762a1bSJed Brown 
2416c4762a1bSJed Brown     test:
2417c4762a1bSJed Brown       suffix: adv_2d_quad_p4est_1
2418c4762a1bSJed Brown       requires: p4est
2419c4762a1bSJed Brown       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
2420c4762a1bSJed Brown       timeoutfactor: 3
2421c4762a1bSJed Brown 
2422c4762a1bSJed Brown     test:
2423c4762a1bSJed Brown       suffix: adv_2d_quad_p4est_adapt_0
2424c4762a1bSJed Brown       requires: p4est !__float128 #broken for quad precision
2425c4762a1bSJed Brown       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
2426c4762a1bSJed Brown       timeoutfactor: 3
2427c4762a1bSJed Brown 
2428c4762a1bSJed Brown     test:
2429c4762a1bSJed Brown       suffix: adv_0
2430c4762a1bSJed Brown       requires: exodusii
243130602db0SMatthew G. Knepley       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
2432c4762a1bSJed Brown 
2433c4762a1bSJed Brown     test:
2434c4762a1bSJed Brown       suffix: shock_0
2435c4762a1bSJed Brown       requires: p4est !single !complex
243630602db0SMatthew G. Knepley       args: -dm_plex_box_faces 2,1 -grid_bounds -1,1.,0.,1 -grid_skew_60 \
243730602db0SMatthew G. Knepley       -dm_type p4est -dm_forest_partition_overlap 1 -dm_forest_maximum_refinement 6 -dm_forest_minimum_refinement 2 -dm_forest_initial_refinement 2 \
243830602db0SMatthew G. Knepley       -ufv_use_amr -refine_vec_tagger_box 0.5,inf -coarsen_vec_tagger_box 0,1.e-2 -refine_tag_view -coarsen_tag_view \
243930602db0SMatthew G. Knepley       -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. \
244030602db0SMatthew G. Knepley       -petscfv_type leastsquares -petsclimiter_type minmod -petscfv_compute_gradients 0 \
244130602db0SMatthew G. Knepley       -ts_max_time 0.5 -ts_ssp_type rks2 -ts_ssp_nstages 10 \
244230602db0SMatthew G. Knepley       -ufv_vtk_basename ${wPETSC_DIR}/ex11 -ufv_vtk_interval 0 -monitor density,energy
2443c4762a1bSJed Brown       timeoutfactor: 3
2444c4762a1bSJed Brown 
2445c4762a1bSJed Brown     # Test GLVis visualization of PetscFV fields
2446c4762a1bSJed Brown     test:
2447c4762a1bSJed Brown       suffix: glvis_adv_2d_tet
244830602db0SMatthew G. Knepley       args: -ufv_vtk_interval 0 -ufv_vtk_monitor 0 \
244930602db0SMatthew G. Knepley             -dm_plex_filename ${wPETSC_DIR}/share/petsc/datafiles/meshes/square_periodic.msh -dm_plex_gmsh_periodic 0 \
245030602db0SMatthew G. Knepley             -ts_monitor_solution glvis: -ts_max_steps 0
2451c4762a1bSJed Brown 
2452c4762a1bSJed Brown     test:
2453c4762a1bSJed Brown       suffix: glvis_adv_2d_quad
245430602db0SMatthew G. Knepley       args: -ufv_vtk_interval 0 -ufv_vtk_monitor 0 -bc_inflow 1,2,4 -bc_outflow 3 \
245530602db0SMatthew G. Knepley             -dm_refine 5 -dm_plex_separate_marker \
245630602db0SMatthew G. Knepley             -ts_monitor_solution glvis: -ts_max_steps 0
2457c4762a1bSJed Brown 
2458c4762a1bSJed Brown TEST*/
2459