/*-----------------------------------------------------------------
 * Programmer(s): Daniel R. Reynolds @ SMU
 *---------------------------------------------------------------
 * SUNDIALS Copyright Start
 * Copyright (c) 2002-2020, Lawrence Livermore National Security
 * and Southern Methodist University.
 * All rights reserved.
 *
 * See the top-level LICENSE and NOTICE files for details.
 *
 * SPDX-License-Identifier: BSD-3-Clause
 * SUNDIALS Copyright End
 *---------------------------------------------------------------
 * Example problem:
 *
 * An ODE system is generated from the following 2-species diurnal
 * kinetics advection-diffusion PDE system in 2 space dimensions:
 *
 * dc(i)/dt = Kh*(d/dx)^2 c(i) + V*dc(i)/dx + (d/dy)(Kv(y)*dc(i)/dy)
 *                 + Ri(c1,c2,t)      for i = 1,2,   where
 *   R1(c1,c2,t) = -q1*c1*c3 - q2*c1*c2 + 2*q3(t)*c3 + q4(t)*c2 ,
 *   R2(c1,c2,t) =  q1*c1*c3 - q2*c1*c2 - q4(t)*c2 ,
 *   Kv(y) = Kv0*exp(y/5) ,
 * Kh, V, Kv0, q1, q2, and c3 are constants, and q3(t) and q4(t)
 * vary diurnally. The problem is posed on the square
 *   0 <= x <= 20,    30 <= y <= 50   (all in km),
 * with homogeneous Neumann boundary conditions, and for time t in
 *   0 <= t <= 86400 sec (1 day).
 * The PDE system is treated by central differences on a uniform
 * mesh, with simple polynomial initial profiles.
 *
 * The problem is solved by ARKODE on NPE processors, treated
 * as a rectangular process grid of size NPEX by NPEY, with
 * NPE = NPEX*NPEY. Each processor contains a subgrid of size MXSUB
 * by MYSUB of the (x,y) mesh. Thus the actual mesh sizes are
 * MX = MXSUB*NPEX and MY = MYSUB*NPEY, and the ODE system size is
 * neq = 2*MX*MY.
 *
 * The solution is done with the DIRK/GMRES method (i.e. using the
 * SUNLinSol_SPGMR linear solver) and a block-diagonal matrix with banded
 * blocks as a preconditioner, using the ARKBBDPRE module.
 * Each block is generated using difference quotients, with
 * half-bandwidths mudq = mldq = 2*MXSUB, but the retained banded
 * blocks have half-bandwidths mukeep = mlkeep = 2.
 * A copy of the approximate Jacobian is saved and conditionally
 * reused within the preconditioner routine.
 *
 * The problem is solved twice -- with left and right preconditioning.
 *
 * Performance data and sampled solution values are printed at
 * selected output times, and all performance counters are printed
 * on completion.
 *
 * This version uses MPI for user routines.
 * Execute with number of processors = NPEX*NPEY (see constants below).
 *------------------------------------------------------------------*/
#include <stdio.h>
#include <stdlib.h>
#include <math.h>
#include <arkode/arkode_arkstep.h>      /* prototypes for ARKStep fcts., consts */
#include <nvector/nvector_parallel.h>   /* access to MPI-parallel N_Vector  */
#include <sunlinsol/sunlinsol_spgmr.h>  /* access to SPGMR SUNLinearSolver  */
#include <arkode/arkode_bbdpre.h>       /* access to ARKBBDPRE module       */
#include <sundials/sundials_types.h>    /* SUNDIALS type definitions        */
#include <mpi.h>                        /* MPI constants and types          */

/* helpful macros */

#ifndef SQR
#define SQR(A) ((A)*(A))
#endif

/* Problem Constants */
#define ZERO         RCONST(0.0)
#define NVARS        2                 /* number of species         */
#define KH           RCONST(4.0e-6)    /* horizontal diffusivity Kh */
#define VEL          RCONST(0.001)     /* advection velocity V      */
#define KV0          RCONST(1.0e-8)    /* coefficient in Kv(y)      */
#define Q1           RCONST(1.63e-16)  /* coefficients q1, q2, c3   */
#define Q2           RCONST(4.66e-16)
#define C3           RCONST(3.7e16)
#define A3           RCONST(22.62)     /* coefficient in expression for q3(t) */
#define A4           RCONST(7.601)     /* coefficient in expression for q4(t) */
#define C1_SCALE     RCONST(1.0e6)     /* coefficients in initial profiles    */
#define C2_SCALE     RCONST(1.0e12)

#define T0           ZERO                /* initial time */
#define NOUT         12                  /* number of output times */
#define TWOHR        RCONST(7200.0)      /* number of seconds in two hours  */
#define HALFDAY      RCONST(4.32e4)      /* number of seconds in a half day */
#define PI       RCONST(3.1415926535898) /* pi */

#define XMIN         ZERO                /* grid boundaries in x  */
#define XMAX         RCONST(20.0)
#define YMIN         RCONST(30.0)        /* grid boundaries in y  */
#define YMAX         RCONST(50.0)

#define NPEX         2              /* no. PEs in x direction of PE array */
#define NPEY         2              /* no. PEs in y direction of PE array */
                                    /* Total no. PEs = NPEX*NPEY */
#define MXSUB        5              /* no. x points per subgrid */
#define MYSUB        5              /* no. y points per subgrid */

#define MX           (NPEX*MXSUB)   /* MX = number of x mesh points */
#define MY           (NPEY*MYSUB)   /* MY = number of y mesh points */
                                    /* Spatial mesh is MX by MY */
/* initialization constants */
#define RTOL    RCONST(1.0e-5)    /* scalar relative tolerance */
#define FLOOR   RCONST(100.0)     /* value of C1 or C2 at which tolerances */
                                  /* change from relative to absolute      */
#define ATOL    (RTOL*FLOOR)      /* scalar absolute tolerance */

/* Type : UserData
   contains problem constants, extended dependent variable array,
   grid constants, processor indices, MPI communicator */
typedef struct {
  realtype q4, om, dx, dy, hdco, haco, vdco;
  realtype uext[NVARS*(MXSUB+2)*(MYSUB+2)];
  int my_pe, isubx, isuby;
  sunindextype nvmxsub, nvmxsub2, Nlocal;
  MPI_Comm comm;
} *UserData;

/* Prototypes of private helper functions */
static void InitUserData(int my_pe, sunindextype local_N, MPI_Comm comm,
                         UserData data);
static void SetInitialProfiles(N_Vector u, UserData data);
static void PrintIntro(int npes, sunindextype mudq, sunindextype mldq,
                       sunindextype mukeep, sunindextype mlkeep);
static void PrintOutput(void *arkode_mem, int my_pe, MPI_Comm comm,
                        N_Vector u, realtype t);
static void PrintFinalStats(void *arkode_mem);
static void BSend(MPI_Comm comm,
                  int my_pe, int isubx, int isuby,
                  sunindextype dsizex, sunindextype dsizey,
                  realtype uarray[]);
static void BRecvPost(MPI_Comm comm, MPI_Request request[],
                      int my_pe, int isubx, int isuby,
                      sunindextype dsizex, sunindextype dsizey,
                      realtype uext[], realtype buffer[]);
static void BRecvWait(MPI_Request request[],
                      int isubx, int isuby,
                      sunindextype dsizex, realtype uext[],
                      realtype buffer[]);
static void fucomm(realtype t, N_Vector u, void *user_data);

/* Prototype of function called by the solver */
static int f(realtype t, N_Vector u, N_Vector udot, void *user_data);

/* Prototype of functions called by the ARKBBDPRE module */
static int flocal(sunindextype Nlocal, realtype t, N_Vector u,
                  N_Vector udot, void *user_data);

/* Private function to check function return values */
static int check_flag(void *flagvalue, const char *funcname, int opt, int id);


/***************************** Main Program ******************************/
int main(int argc, char *argv[])
{
  UserData data;
  SUNLinearSolver LS;
  void *arkode_mem;
  realtype abstol, reltol, t, tout;
  N_Vector u;
  int iout, my_pe, npes, flag, jpre;
  sunindextype neq, local_N, mudq, mldq, mukeep, mlkeep;
  MPI_Comm comm;

  data = NULL;
  LS = NULL;
  arkode_mem = NULL;
  u = NULL;

  /* Set problem size neq */
  neq = NVARS*MX*MY;

  /* Get processor number and total number of pe's */
  MPI_Init(&argc, &argv);
  comm = MPI_COMM_WORLD;
  MPI_Comm_size(comm, &npes);
  MPI_Comm_rank(comm, &my_pe);

  if (npes != NPEX*NPEY) {
    if (my_pe == 0)
      fprintf(stderr, "\nMPI_ERROR(0): npes = %d is not equal to NPEX*NPEY = %d\n\n",
              npes, NPEX*NPEY);
    MPI_Finalize();
    return(1);
  }

  /* Set local length */
  local_N = NVARS*MXSUB*MYSUB;

  /* Allocate and load user data block */
  data = (UserData) malloc(sizeof *data);
  if(check_flag((void *)data, "malloc", 2, my_pe)) MPI_Abort(comm, 1);
  InitUserData(my_pe, local_N, comm, data);

  /* Allocate and initialize u, and set tolerances */
  u = N_VNew_Parallel(comm, local_N, neq);
  if(check_flag((void *)u, "N_VNew_Parallel", 0, my_pe)) MPI_Abort(comm, 1);
  SetInitialProfiles(u, data);
  abstol = ATOL;
  reltol = RTOL;

  /* Create SPGMR solver structure -- use left preconditioning
     and the default Krylov dimension maxl */
  LS = SUNLinSol_SPGMR(u, PREC_LEFT, 0);
  if (check_flag((void *)LS, "SUNLinSol_SPGMR", 0, my_pe)) MPI_Abort(comm, 1);

  /* Call ARKStepCreate to initialize the integrator memory and specify the
     user's right hand side function in u'=fi(t,u) [here fe is NULL],
     the inital time T0, and the initial dependent variable vector u. */
  arkode_mem = ARKStepCreate(NULL, f, T0, u);
  if(check_flag((void *)arkode_mem, "ARKStepCreate", 0, my_pe)) MPI_Abort(comm, 1);

  /* Set the pointer to user-defined data */
  flag = ARKStepSetUserData(arkode_mem, data);
  if(check_flag(&flag, "ARKStepSetUserData", 1, my_pe)) MPI_Abort(comm, 1);

  /* Call ARKStepSetMaxNumSteps to increase default */
  flag = ARKStepSetMaxNumSteps(arkode_mem, 10000);
  if (check_flag(&flag, "ARKStepSetMaxNumSteps", 1, my_pe)) return(1);

  /* Call ARKStepSStolerances to specify the scalar relative tolerance
     and scalar absolute tolerances */
  flag = ARKStepSStolerances(arkode_mem, reltol, abstol);
  if (check_flag(&flag, "ARKStepSStolerances", 1, my_pe)) return(1);

  /* Attach SPGMR solver structure to ARKStep interface */
  flag = ARKStepSetLinearSolver(arkode_mem, LS, NULL);
  if (check_flag(&flag, "ARKStepSetLinearSolver", 1, my_pe)) MPI_Abort(comm, 1);

  /* Initialize BBD preconditioner */
  mudq = mldq = NVARS*MXSUB;
  mukeep = mlkeep = NVARS;
  flag = ARKBBDPrecInit(arkode_mem, local_N, mudq, mldq,
                        mukeep, mlkeep, ZERO, flocal, NULL);
  if(check_flag(&flag, "ARKBBDPrecInit", 1, my_pe)) MPI_Abort(comm, 1);

  /* Print heading */
  if (my_pe == 0) PrintIntro(npes, mudq, mldq, mukeep, mlkeep);

  /* Loop over jpre (= PREC_LEFT, PREC_RIGHT), and solve the problem */
  for (jpre=PREC_LEFT; jpre<=PREC_RIGHT; jpre++) {

    /* On second run, re-initialize u, the integrator, ARKBBDPRE,
       and preconditioning type */
    if (jpre == PREC_RIGHT) {

      SetInitialProfiles(u, data);

      flag = ARKStepReInit(arkode_mem, NULL, f, T0, u);
      if(check_flag(&flag, "ARKStepReInit", 1, my_pe)) MPI_Abort(comm, 1);

      flag = ARKBBDPrecReInit(arkode_mem, mudq, mldq, ZERO);
      if(check_flag(&flag, "ARKBBDPrecReInit", 1, my_pe)) MPI_Abort(comm, 1);

      flag = SUNLinSol_SPGMRSetPrecType(LS, PREC_RIGHT);
      if(check_flag(&flag, "SUNLinSol_SPGMRSetPrecType", 1, my_pe)) MPI_Abort(comm, 1);

      if (my_pe == 0) {
        printf("\n\n-------------------------------------------------------");
        printf("------------\n");
      }

    }

    if (my_pe == 0) {
      printf("\n\nPreconditioner type is:  jpre = %s\n\n",
             (jpre == PREC_LEFT) ? "PREC_LEFT" : "PREC_RIGHT");
    }

    /* In loop over output points, call ARKStepEvolve, print results, test for error */
    for (iout=1, tout=TWOHR; iout<=NOUT; iout++, tout+=TWOHR) {
      flag = ARKStepEvolve(arkode_mem, tout, u, &t, ARK_NORMAL);
      if(check_flag(&flag, "ARKStepEvolve", 1, my_pe)) break;
      PrintOutput(arkode_mem, my_pe, comm, u, t);
    }

    /* Print final statistics */
    if (my_pe == 0) PrintFinalStats(arkode_mem);

  } /* End of jpre loop */

  /* Free memory */
  N_VDestroy(u);
  free(data);
  ARKStepFree(&arkode_mem);
  SUNLinSolFree(LS);
  MPI_Finalize();
  return(0);
}

/*********************** Private Helper Functions ************************/

/* Load constants in data */
static void InitUserData(int my_pe, sunindextype local_N, MPI_Comm comm,
                         UserData data)
{
  int isubx, isuby;

  /* Set problem constants */
  data->om = PI/HALFDAY;
  data->dx = (XMAX-XMIN)/((realtype)(MX-1));
  data->dy = (YMAX-YMIN)/((realtype)(MY-1));
  data->hdco = KH/SQR(data->dx);
  data->haco = VEL/(RCONST(2.0)*data->dx);
  data->vdco = (RCONST(1.0)/SQR(data->dy))*KV0;

  /* Set machine-related constants */
  data->comm = comm;
  data->my_pe = my_pe;
  data->Nlocal = local_N;
  /* isubx and isuby are the PE grid indices corresponding to my_pe */
  isuby = my_pe/NPEX;
  isubx = my_pe - isuby*NPEX;
  data->isubx = isubx;
  data->isuby = isuby;
  /* Set the sizes of a boundary x-line in u and uext */
  data->nvmxsub = NVARS*MXSUB;
  data->nvmxsub2 = NVARS*(MXSUB+2);
}

/* Set initial conditions in u */
static void SetInitialProfiles(N_Vector u, UserData data)
{
  int isubx, isuby;
  int lx, ly, jx, jy;
  sunindextype offset;
  realtype dx, dy, x, y, cx, cy, xmid, ymid;
  realtype *uarray;

  /* Set pointer to data array in vector u */
  uarray = N_VGetArrayPointer(u);

  /* Get mesh spacings, and subgrid indices for this PE */
  dx = data->dx;         dy = data->dy;
  isubx = data->isubx;   isuby = data->isuby;

  /* Load initial profiles of c1 and c2 into local u vector.
  Here lx and ly are local mesh point indices on the local subgrid,
  and jx and jy are the global mesh point indices. */
  offset = 0;
  xmid = RCONST(0.5)*(XMIN + XMAX);
  ymid = RCONST(0.5)*(YMIN + YMAX);
  for (ly = 0; ly < MYSUB; ly++) {
    jy = ly + isuby*MYSUB;
    y = YMIN + jy*dy;
    cy = SQR(RCONST(0.1)*(y - ymid));
    cy = RCONST(1.0) - cy + RCONST(0.5)*SQR(cy);
    for (lx = 0; lx < MXSUB; lx++) {
      jx = lx + isubx*MXSUB;
      x = XMIN + jx*dx;
      cx = SQR(RCONST(0.1)*(x - xmid));
      cx = RCONST(1.0) - cx + RCONST(0.5)*SQR(cx);
      uarray[offset  ] = C1_SCALE*cx*cy;
      uarray[offset+1] = C2_SCALE*cx*cy;
      offset = offset + 2;
    }
  }
}

/* Print problem introduction */
static void PrintIntro(int npes, sunindextype mudq, sunindextype mldq,
                       sunindextype mukeep, sunindextype mlkeep)
{
  printf("\n2-species diurnal advection-diffusion problem\n");
  printf("  %d by %d mesh on %d processors\n", MX, MY, npes);
  printf("  Using ARKBBDPRE preconditioner module\n");
  printf("    Difference-quotient half-bandwidths are");
  printf(" mudq = %ld,  mldq = %ld\n", (long int) mudq, (long int) mldq);
  printf("    Retained band block half-bandwidths are");
  printf(" mukeep = %ld,  mlkeep = %ld", (long int) mukeep, (long int) mlkeep);
  return;
}

/* Print current t, step count, order, stepsize, and sampled c1,c2 values */
static void PrintOutput(void *arkode_mem, int my_pe, MPI_Comm comm,
                        N_Vector u, realtype t)
{
  int flag, npelast;
  sunindextype i0, i1;
  long int nst;
  realtype hu, *uarray, tempu[2];
  MPI_Status status;

  npelast = NPEX*NPEY - 1;
  uarray = N_VGetArrayPointer(u);

  /* Send c1,c2 at top right mesh point to PE 0 */
  if (my_pe == npelast) {
    i0 = NVARS*MXSUB*MYSUB - 2;
    i1 = i0 + 1;
    if (npelast != 0)
      MPI_Send(&uarray[i0], 2, MPI_SUNREALTYPE, 0, 0, comm);
    else {
      tempu[0] = uarray[i0];
      tempu[1] = uarray[i1];
    }
  }

  /* On PE 0, receive c1,c2 at top right, then print performance data
     and sampled solution values */
  if (my_pe == 0) {
    if (npelast != 0)
      MPI_Recv(&tempu[0], 2, MPI_SUNREALTYPE, npelast, 0, comm, &status);
    flag = ARKStepGetNumSteps(arkode_mem, &nst);
    check_flag(&flag, "ARKStepGetNumSteps", 1, my_pe);
    flag = ARKStepGetLastStep(arkode_mem, &hu);
    check_flag(&flag, "ARKStepGetLastStep", 1, my_pe);
#if defined(SUNDIALS_EXTENDED_PRECISION)
    printf("t = %.2Le   no. steps = %ld   stepsize = %.2Le\n",
           t, nst, hu);
    printf("At bottom left:  c1, c2 = %12.3Le %12.3Le \n", uarray[0], uarray[1]);
    printf("At top right:    c1, c2 = %12.3Le %12.3Le \n\n", tempu[0], tempu[1]);
#elif defined(SUNDIALS_DOUBLE_PRECISION)
    printf("t = %.2e   no. steps = %ld   stepsize = %.2e\n",
           t, nst, hu);
    printf("At bottom left:  c1, c2 = %12.3e %12.3e \n", uarray[0], uarray[1]);
    printf("At top right:    c1, c2 = %12.3e %12.3e \n\n", tempu[0], tempu[1]);
#else
    printf("t = %.2e   no. steps = %ld   stepsize = %.2e\n",
           t, nst, hu);
    printf("At bottom left:  c1, c2 = %12.3e %12.3e \n", uarray[0], uarray[1]);
    printf("At top right:    c1, c2 = %12.3e %12.3e \n\n", tempu[0], tempu[1]);
#endif
  }
}

/* Print final statistics contained in iopt */
static void PrintFinalStats(void *arkode_mem)
{
  long int lenrw, leniw ;
  long int lenrwLS, leniwLS;
  long int lenrwBBDP, leniwBBDP;
  long int nst, nfe, nfi, nsetups, nni, ncfn, netf;
  long int nli, npe, nps, ncfl, nfeLS, ngevalsBBDP;
  int flag;

  flag = ARKStepGetWorkSpace(arkode_mem, &lenrw, &leniw);
  check_flag(&flag, "ARKStepGetWorkSpace", 1, 0);
  flag = ARKStepGetNumSteps(arkode_mem, &nst);
  check_flag(&flag, "ARKStepGetNumSteps", 1, 0);
  flag = ARKStepGetNumRhsEvals(arkode_mem, &nfe, &nfi);
  check_flag(&flag, "ARKStepGetNumRhsEvals", 1, 0);
  flag = ARKStepGetNumLinSolvSetups(arkode_mem, &nsetups);
  check_flag(&flag, "ARKStepGetNumLinSolvSetups", 1, 0);
  flag = ARKStepGetNumErrTestFails(arkode_mem, &netf);
  check_flag(&flag, "ARKStepGetNumErrTestFails", 1, 0);
  flag = ARKStepGetNumNonlinSolvIters(arkode_mem, &nni);
  check_flag(&flag, "ARKStepGetNumNonlinSolvIters", 1, 0);
  flag = ARKStepGetNumNonlinSolvConvFails(arkode_mem, &ncfn);
  check_flag(&flag, "ARKStepGetNumNonlinSolvConvFails", 1, 0);

  flag = ARKStepGetLinWorkSpace(arkode_mem, &lenrwLS, &leniwLS);
  check_flag(&flag, "ARKStepGetLinWorkSpace", 1, 0);
  flag = ARKStepGetNumLinIters(arkode_mem, &nli);
  check_flag(&flag, "ARKStepGetNumLinIters", 1, 0);
  flag = ARKStepGetNumPrecEvals(arkode_mem, &npe);
  check_flag(&flag, "ARKStepGetNumPrecEvals", 1, 0);
  flag = ARKStepGetNumPrecSolves(arkode_mem, &nps);
  check_flag(&flag, "ARKStepGetNumPrecSolves", 1, 0);
  flag = ARKStepGetNumLinConvFails(arkode_mem, &ncfl);
  check_flag(&flag, "ARKStepGetNumLinConvFails", 1, 0);
  flag = ARKStepGetNumLinRhsEvals(arkode_mem, &nfeLS);
  check_flag(&flag, "ARKStepGetNumLinRhsEvals", 1, 0);

  printf("\nFinal Statistics: \n\n");
  printf("lenrw   = %5ld     leniw   = %5ld\n", lenrw, leniw);
  printf("lenrwls = %5ld     leniwls = %5ld\n", lenrwLS, leniwLS);
  printf("nst     = %5ld     nfe     = %5ld\n", nst, nfe);
  printf("nfe     = %5ld     nfels   = %5ld\n", nfi, nfeLS);
  printf("nni     = %5ld     nli     = %5ld\n", nni, nli);
  printf("nsetups = %5ld     netf    = %5ld\n", nsetups, netf);
  printf("npe     = %5ld     nps     = %5ld\n", npe, nps);
  printf("ncfn    = %5ld     ncfl    = %5ld\n\n", ncfn, ncfl);

  flag = ARKBBDPrecGetWorkSpace(arkode_mem, &lenrwBBDP, &leniwBBDP);
  check_flag(&flag, "ARKBBDPrecGetWorkSpace", 1, 0);
  flag = ARKBBDPrecGetNumGfnEvals(arkode_mem, &ngevalsBBDP);
  check_flag(&flag, "ARKBBDPrecGetNumGfnEvals", 1, 0);
  printf("In ARKBBDPRE: real/integer local work space sizes = %ld, %ld\n",
         lenrwBBDP, leniwBBDP);
  printf("             no. flocal evals. = %ld\n",ngevalsBBDP);
}

/* Routine to send boundary data to neighboring PEs */
static void BSend(MPI_Comm comm,
                  int my_pe, int isubx, int isuby,
                  sunindextype dsizex, sunindextype dsizey,
                  realtype uarray[])
{
  int i, ly;
  sunindextype offsetu, offsetbuf;
  realtype bufleft[NVARS*MYSUB], bufright[NVARS*MYSUB];

  /* If isuby > 0, send data from bottom x-line of u */
  if (isuby != 0)
    MPI_Send(&uarray[0], (int) dsizex, MPI_SUNREALTYPE, my_pe-NPEX, 0, comm);

  /* If isuby < NPEY-1, send data from top x-line of u */
  if (isuby != NPEY-1) {
    offsetu = (MYSUB-1)*dsizex;
    MPI_Send(&uarray[offsetu], (int) dsizex, MPI_SUNREALTYPE, my_pe+NPEX, 0, comm);
  }

  /* If isubx > 0, send data from left y-line of u (via bufleft) */
  if (isubx != 0) {
    for (ly = 0; ly < MYSUB; ly++) {
      offsetbuf = ly*NVARS;
      offsetu = ly*dsizex;
      for (i = 0; i < NVARS; i++)
        bufleft[offsetbuf+i] = uarray[offsetu+i];
    }
    MPI_Send(&bufleft[0], (int) dsizey, MPI_SUNREALTYPE, my_pe-1, 0, comm);
  }

  /* If isubx < NPEX-1, send data from right y-line of u (via bufright) */
  if (isubx != NPEX-1) {
    for (ly = 0; ly < MYSUB; ly++) {
      offsetbuf = ly*NVARS;
      offsetu = offsetbuf*MXSUB + (MXSUB-1)*NVARS;
      for (i = 0; i < NVARS; i++)
        bufright[offsetbuf+i] = uarray[offsetu+i];
    }
    MPI_Send(&bufright[0], (int) dsizey, MPI_SUNREALTYPE, my_pe+1, 0, comm);
  }
}

/* Routine to start receiving boundary data from neighboring PEs.
   Notes:
   1) buffer should be able to hold 2*NVARS*MYSUB realtype entries, should be
   passed to both the BRecvPost and BRecvWait functions, and should not
   be manipulated between the two calls.
   2) request should have 4 entries, and should be passed in both calls also. */
static void BRecvPost(MPI_Comm comm, MPI_Request request[],
                      int my_pe, int isubx, int isuby,
                      sunindextype dsizex, sunindextype dsizey,
                      realtype uext[], realtype buffer[])
{
  sunindextype offsetue;
  /* Have bufleft and bufright use the same buffer */
  realtype *bufleft = buffer, *bufright = buffer+NVARS*MYSUB;

  /* If isuby > 0, receive data for bottom x-line of uext */
  if (isuby != 0)
    MPI_Irecv(&uext[NVARS], (int) dsizex, MPI_SUNREALTYPE,
              my_pe-NPEX, 0, comm, &request[0]);

  /* If isuby < NPEY-1, receive data for top x-line of uext */
  if (isuby != NPEY-1) {
    offsetue = NVARS*(1 + (MYSUB+1)*(MXSUB+2));
    MPI_Irecv(&uext[offsetue], (int) dsizex, MPI_SUNREALTYPE,
              my_pe+NPEX, 0, comm, &request[1]);
  }

  /* If isubx > 0, receive data for left y-line of uext (via bufleft) */
  if (isubx != 0) {
    MPI_Irecv(&bufleft[0], (int) dsizey, MPI_SUNREALTYPE,
              my_pe-1, 0, comm, &request[2]);
  }

  /* If isubx < NPEX-1, receive data for right y-line of uext (via bufright) */
  if (isubx != NPEX-1) {
    MPI_Irecv(&bufright[0], (int) dsizey, MPI_SUNREALTYPE,
              my_pe+1, 0, comm, &request[3]);
  }
}

/* Routine to finish receiving boundary data from neighboring PEs.
   Notes:
   1) buffer should be able to hold 2*NVARS*MYSUB realtype entries, should be
   passed to both the BRecvPost and BRecvWait functions, and should not
   be manipulated between the two calls.
   2) request should have 4 entries, and should be passed in both calls also. */
static void BRecvWait(MPI_Request request[],
                      int isubx, int isuby,
                      sunindextype dsizex, realtype uext[],
                      realtype buffer[])
{
  int i, ly;
  sunindextype dsizex2, offsetue, offsetbuf;
  realtype *bufleft = buffer, *bufright = buffer+NVARS*MYSUB;
  MPI_Status status;

  dsizex2 = dsizex + 2*NVARS;

  /* If isuby > 0, receive data for bottom x-line of uext */
  if (isuby != 0)
    MPI_Wait(&request[0],&status);

  /* If isuby < NPEY-1, receive data for top x-line of uext */
  if (isuby != NPEY-1)
    MPI_Wait(&request[1],&status);

  /* If isubx > 0, receive data for left y-line of uext (via bufleft) */
  if (isubx != 0) {
    MPI_Wait(&request[2],&status);

    /* Copy the buffer to uext */
    for (ly = 0; ly < MYSUB; ly++) {
      offsetbuf = ly*NVARS;
      offsetue = (ly+1)*dsizex2;
      for (i = 0; i < NVARS; i++)
        uext[offsetue+i] = bufleft[offsetbuf+i];
    }
  }

  /* If isubx < NPEX-1, receive data for right y-line of uext (via bufright) */
  if (isubx != NPEX-1) {
    MPI_Wait(&request[3],&status);

    /* Copy the buffer to uext */
    for (ly = 0; ly < MYSUB; ly++) {
      offsetbuf = ly*NVARS;
      offsetue = (ly+2)*dsizex2 - NVARS;
      for (i = 0; i < NVARS; i++)
        uext[offsetue+i] = bufright[offsetbuf+i];
    }
  }
}

/* fucomm routine.  This routine performs all inter-processor
   communication of data in u needed to calculate f.         */
static void fucomm(realtype t, N_Vector u, void *user_data)
{
  UserData data;
  realtype *uarray, *uext, buffer[2*NVARS*MYSUB];
  MPI_Comm comm;
  int my_pe, isubx, isuby;
  sunindextype nvmxsub, nvmysub;
  MPI_Request request[4];

  data = (UserData) user_data;
  uarray = N_VGetArrayPointer(u);

  /* Get comm, my_pe, subgrid indices, data sizes, extended array uext */
  comm = data->comm;  my_pe = data->my_pe;
  isubx = data->isubx;   isuby = data->isuby;
  nvmxsub = data->nvmxsub;
  nvmysub = NVARS*MYSUB;
  uext = data->uext;

  /* Start receiving boundary data from neighboring PEs */
  BRecvPost(comm, request, my_pe, isubx, isuby, nvmxsub, nvmysub, uext, buffer);

  /* Send data from boundary of local grid to neighboring PEs */
  BSend(comm, my_pe, isubx, isuby, nvmxsub, nvmysub, uarray);

  /* Finish receiving boundary data from neighboring PEs */
  BRecvWait(request, isubx, isuby, nvmxsub, uext, buffer);
}

/***************** Function called by the solver **************************/

/* f routine.  Evaluate f(t,y).  First call fucomm to do communication of
   subgrid boundary data into uext.  Then calculate f by a call to flocal. */
static int f(realtype t, N_Vector u, N_Vector udot, void *user_data)
{
  UserData data;

  data = (UserData) user_data;

  /* Call fucomm to do inter-processor communication */
  fucomm (t, u, user_data);

  /* Call flocal to calculate all right-hand sides */
  flocal (data->Nlocal, t, u, udot, user_data);

  return(0);
}

/***************** Functions called by the ARKBBDPRE module ****************/

/* flocal routine.  Compute f(t,y).  This routine assumes that all
   inter-processor communication of data needed to calculate f has already
   been done, and this data is in the work array uext.                    */
static int flocal(sunindextype Nlocal, realtype t, N_Vector u,
                  N_Vector udot, void *user_data)
{
  realtype *uext;
  realtype q3, c1, c2, c1dn, c2dn, c1up, c2up, c1lt, c2lt;
  realtype c1rt, c2rt, cydn, cyup, hord1, hord2, horad1, horad2;
  realtype qq1, qq2, qq3, qq4, rkin1, rkin2, s, vertd1, vertd2, ydn, yup;
  realtype q4coef, dely, verdco, hordco, horaco;
  int i, lx, ly, jy;
  int isubx, isuby;
  sunindextype nvmxsub, nvmxsub2, offsetu, offsetue;
  UserData data;
  realtype *uarray, *duarray;

  uarray = N_VGetArrayPointer(u);
  duarray = N_VGetArrayPointer(udot);

  /* Get subgrid indices, array sizes, extended work array uext */
  data = (UserData) user_data;
  isubx = data->isubx;   isuby = data->isuby;
  nvmxsub = data->nvmxsub; nvmxsub2 = data->nvmxsub2;
  uext = data->uext;

  /* Copy local segment of u vector into the working extended array uext */
  offsetu = 0;
  offsetue = nvmxsub2 + NVARS;
  for (ly = 0; ly < MYSUB; ly++) {
    for (i = 0; i < nvmxsub; i++) uext[offsetue+i] = uarray[offsetu+i];
    offsetu = offsetu + nvmxsub;
    offsetue = offsetue + nvmxsub2;
  }

  /* To facilitate homogeneous Neumann boundary conditions, when this is
  a boundary PE, copy data from the first interior mesh line of u to uext */

  /* If isuby = 0, copy x-line 2 of u to uext */
  if (isuby == 0) {
    for (i = 0; i < nvmxsub; i++) uext[NVARS+i] = uarray[nvmxsub+i];
  }

  /* If isuby = NPEY-1, copy x-line MYSUB-1 of u to uext */
  if (isuby == NPEY-1) {
    offsetu = (MYSUB-2)*nvmxsub;
    offsetue = (MYSUB+1)*nvmxsub2 + NVARS;
    for (i = 0; i < nvmxsub; i++) uext[offsetue+i] = uarray[offsetu+i];
  }

  /* If isubx = 0, copy y-line 2 of u to uext */
  if (isubx == 0) {
    for (ly = 0; ly < MYSUB; ly++) {
      offsetu = ly*nvmxsub + NVARS;
      offsetue = (ly+1)*nvmxsub2;
      for (i = 0; i < NVARS; i++) uext[offsetue+i] = uarray[offsetu+i];
    }
  }

  /* If isubx = NPEX-1, copy y-line MXSUB-1 of u to uext */
  if (isubx == NPEX-1) {
    for (ly = 0; ly < MYSUB; ly++) {
      offsetu = (ly+1)*nvmxsub - 2*NVARS;
      offsetue = (ly+2)*nvmxsub2 - NVARS;
      for (i = 0; i < NVARS; i++) uext[offsetue+i] = uarray[offsetu+i];
    }
  }

  /* Make local copies of problem variables, for efficiency */
  dely = data->dy;
  verdco = data->vdco;
  hordco = data->hdco;
  horaco = data->haco;

  /* Set diurnal rate coefficients as functions of t, and save q4 in
  data block for use by preconditioner evaluation routine            */

  s = sin((data->om)*t);
  if (s > ZERO) {
    q3 = exp(-A3/s);
    q4coef = exp(-A4/s);
  } else {
    q3 = ZERO;
    q4coef = ZERO;
  }
  data->q4 = q4coef;


  /* Loop over all grid points in local subgrid */
  for (ly = 0; ly < MYSUB; ly++) {

    jy = ly + isuby*MYSUB;

    /* Set vertical diffusion coefficients at jy +- 1/2 */
    ydn = YMIN + (jy - RCONST(0.5))*dely;
    yup = ydn + dely;
    cydn = verdco*exp(RCONST(0.2)*ydn);
    cyup = verdco*exp(RCONST(0.2)*yup);
    for (lx = 0; lx < MXSUB; lx++) {

      /* Extract c1 and c2, and set kinetic rate terms */
      offsetue = (lx+1)*NVARS + (ly+1)*nvmxsub2;
      c1 = uext[offsetue];
      c2 = uext[offsetue+1];
      qq1 = Q1*c1*C3;
      qq2 = Q2*c1*c2;
      qq3 = q3*C3;
      qq4 = q4coef*c2;
      rkin1 = -qq1 - qq2 + 2.0*qq3 + qq4;
      rkin2 = qq1 - qq2 - qq4;

      /* Set vertical diffusion terms */
      c1dn = uext[offsetue-nvmxsub2];
      c2dn = uext[offsetue-nvmxsub2+1];
      c1up = uext[offsetue+nvmxsub2];
      c2up = uext[offsetue+nvmxsub2+1];
      vertd1 = cyup*(c1up - c1) - cydn*(c1 - c1dn);
      vertd2 = cyup*(c2up - c2) - cydn*(c2 - c2dn);

      /* Set horizontal diffusion and advection terms */
      c1lt = uext[offsetue-2];
      c2lt = uext[offsetue-1];
      c1rt = uext[offsetue+2];
      c2rt = uext[offsetue+3];
      hord1 = hordco*(c1rt - RCONST(2.0)*c1 + c1lt);
      hord2 = hordco*(c2rt - RCONST(2.0)*c2 + c2lt);
      horad1 = horaco*(c1rt - c1lt);
      horad2 = horaco*(c2rt - c2lt);

      /* Load all terms into duarray */
      offsetu = lx*NVARS + ly*nvmxsub;
      duarray[offsetu]   = vertd1 + hord1 + horad1 + rkin1;
      duarray[offsetu+1] = vertd2 + hord2 + horad2 + rkin2;
    }
  }

  return(0);
}

/* Check function return value...
     opt == 0 means SUNDIALS function allocates memory so check if
              returned NULL pointer
     opt == 1 means SUNDIALS function returns a flag so check if
              flag >= 0
     opt == 2 means function allocates memory so check if returned
              NULL pointer */
static int check_flag(void *flagvalue, const char *funcname, int opt, int id)
{
  int *errflag;

  /* Check if SUNDIALS function returned NULL pointer - no memory allocated */
  if (opt == 0 && flagvalue == NULL) {
    fprintf(stderr, "\nSUNDIALS_ERROR(%d): %s() failed - returned NULL pointer\n\n",
            id, funcname);
    return(1); }

  /* Check if flag < 0 */
  else if (opt == 1) {
    errflag = (int *) flagvalue;
    if (*errflag < 0) {
      fprintf(stderr, "\nSUNDIALS_ERROR(%d): %s() failed with flag = %d\n\n",
              id, funcname, *errflag);
      return(1); }}

  /* Check if function returned NULL pointer - no memory allocated */
  else if (opt == 2 && flagvalue == NULL) {
    fprintf(stderr, "\nMEMORY_ERROR(%d): %s() failed - returned NULL pointer\n\n",
            id, funcname);
    return(1); }

  return(0);
}
