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LBPM/models/GreyscaleColorModel.cpp
Thomas Ramstad 23189f5577
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2021-11-08 22:58:37 +01:00

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/*
Two-fluid greyscale color lattice boltzmann model
*/
#include "models/GreyscaleColorModel.h"
#include "analysis/distance.h"
#include "analysis/morphology.h"
#include "common/Communication.h"
#include "common/ReadMicroCT.h"
#include <stdlib.h>
#include <time.h>
template <class TYPE> void DeleteArray(const TYPE *p) { delete[] p; }
ScaLBL_GreyscaleColorModel::ScaLBL_GreyscaleColorModel(
int RANK, int NP, const Utilities::MPI &COMM)
: rank(RANK), nprocs(NP), Restart(0), timestep(0), timestepMax(0), tauA(0),
tauB(0), tauA_eff(0), tauB_eff(0), rhoA(0), rhoB(0), alpha(0), beta(0),
Fx(0), Fy(0), Fz(0), flux(0), din(0), dout(0), inletA(0), inletB(0),
outletA(0), outletB(0), GreyPorosity(0), RecoloringOff(0), Nx(0), Ny(0),
Nz(0), N(0), Np(0), nprocx(0), nprocy(0), nprocz(0), BoundaryCondition(0),
Lx(0), Ly(0), Lz(0), comm(COMM) {
REVERSE_FLOW_DIRECTION = false;
}
ScaLBL_GreyscaleColorModel::~ScaLBL_GreyscaleColorModel() {}
void ScaLBL_GreyscaleColorModel::ReadParams(string filename) {
// read the input database
db = std::make_shared<Database>(filename);
domain_db = db->getDatabase("Domain");
greyscaleColor_db = db->getDatabase("Color");
analysis_db = db->getDatabase("Analysis");
vis_db = db->getDatabase("Visualization");
// set defaults
timestepMax = 100000;
tauA = tauB = 1.0;
rhoA = rhoB = 1.0;
Fx = Fy = Fz = 0.0;
alpha = 1e-3;
beta = 0.95;
Restart = false;
din = dout = 1.0;
flux = 0.0;
RecoloringOff = false;
//W=1.0;
// Color Model parameters
if (greyscaleColor_db->keyExists("timestepMax")) {
timestepMax = greyscaleColor_db->getScalar<int>("timestepMax");
}
if (greyscaleColor_db->keyExists("tauA")) {
tauA = greyscaleColor_db->getScalar<double>("tauA");
}
if (greyscaleColor_db->keyExists("tauB")) {
tauB = greyscaleColor_db->getScalar<double>("tauB");
}
tauA_eff = greyscaleColor_db->getWithDefault<double>("tauA_eff", tauA);
tauB_eff = greyscaleColor_db->getWithDefault<double>("tauB_eff", tauB);
if (greyscaleColor_db->keyExists("rhoA")) {
rhoA = greyscaleColor_db->getScalar<double>("rhoA");
}
if (greyscaleColor_db->keyExists("rhoB")) {
rhoB = greyscaleColor_db->getScalar<double>("rhoB");
}
if (greyscaleColor_db->keyExists("F")) {
Fx = greyscaleColor_db->getVector<double>("F")[0];
Fy = greyscaleColor_db->getVector<double>("F")[1];
Fz = greyscaleColor_db->getVector<double>("F")[2];
}
if (greyscaleColor_db->keyExists("alpha")) {
alpha = greyscaleColor_db->getScalar<double>("alpha");
}
if (greyscaleColor_db->keyExists("beta")) {
beta = greyscaleColor_db->getScalar<double>("beta");
}
if (greyscaleColor_db->keyExists("Restart")) {
Restart = greyscaleColor_db->getScalar<bool>("Restart");
}
if (greyscaleColor_db->keyExists("din")) {
din = greyscaleColor_db->getScalar<double>("din");
}
if (greyscaleColor_db->keyExists("dout")) {
dout = greyscaleColor_db->getScalar<double>("dout");
}
if (greyscaleColor_db->keyExists("flux")) {
flux = greyscaleColor_db->getScalar<double>("flux");
}
if (greyscaleColor_db->keyExists("RecoloringOff")) {
RecoloringOff = greyscaleColor_db->getScalar<bool>("RecoloringOff");
}
inletA = 1.f;
inletB = 0.f;
outletA = 0.f;
outletB = 1.f;
//if (BoundaryCondition==4) flux *= rhoA; // mass flux must adjust for density (see formulation for details)
BoundaryCondition = 0;
if (domain_db->keyExists("BC")) {
BoundaryCondition = domain_db->getScalar<int>("BC");
}
// Override user-specified boundary condition for specific protocols
auto protocol =
greyscaleColor_db->getWithDefault<std::string>("protocol", "none");
if (protocol == "seed water") {
if (BoundaryCondition != 0 && BoundaryCondition != 5) {
BoundaryCondition = 0;
if (rank == 0)
printf("WARNING: protocol (seed water) supports only full "
"periodic boundary condition \n");
}
domain_db->putScalar<int>("BC", BoundaryCondition);
} else if (protocol == "open connected oil") {
if (BoundaryCondition != 0 && BoundaryCondition != 5) {
BoundaryCondition = 0;
if (rank == 0)
printf("WARNING: protocol (open connected oil) supports only "
"full periodic boundary condition \n");
}
domain_db->putScalar<int>("BC", BoundaryCondition);
} else if (protocol == "shell aggregation") {
if (BoundaryCondition != 0 && BoundaryCondition != 5) {
BoundaryCondition = 0;
if (rank == 0)
printf("WARNING: protocol (shell aggregation) supports only "
"full periodic boundary condition \n");
}
domain_db->putScalar<int>("BC", BoundaryCondition);
}
}
void ScaLBL_GreyscaleColorModel::SetDomain() {
Dm = std::shared_ptr<Domain>(
new Domain(domain_db, comm)); // full domain for analysis
Mask = std::shared_ptr<Domain>(
new Domain(domain_db, comm)); // mask domain removes immobile phases
// domain parameters
Nx = Dm->Nx;
Ny = Dm->Ny;
Nz = Dm->Nz;
Lx = Dm->Lx;
Ly = Dm->Ly;
Lz = Dm->Lz;
N = Nx * Ny * Nz;
id = new signed char[N];
for (int i = 0; i < Nx * Ny * Nz; i++)
Dm->id[i] = 1; // initialize this way
Averages = std::shared_ptr<GreyPhaseAnalysis>(
new GreyPhaseAnalysis(Dm)); // TwoPhase analysis object
comm.barrier();
Dm->CommInit();
comm.barrier();
// Read domain parameters
rank = Dm->rank();
nprocx = Dm->nprocx();
nprocy = Dm->nprocy();
nprocz = Dm->nprocz();
}
void ScaLBL_GreyscaleColorModel::ReadInput() {
sprintf(LocalRankString, "%05d", rank);
sprintf(LocalRankFilename, "%s%s", "ID.", LocalRankString);
sprintf(LocalRestartFile, "%s%s", "Restart.", LocalRankString);
if (greyscaleColor_db->keyExists("image_sequence")) {
auto ImageList =
greyscaleColor_db->getVector<std::string>("image_sequence");
int IMAGE_INDEX =
greyscaleColor_db->getWithDefault<int>("image_index", 0);
std::string first_image = ImageList[IMAGE_INDEX];
Mask->Decomp(first_image);
IMAGE_INDEX++;
} else if (domain_db->keyExists("GridFile")) {
// Read the local domain data
auto input_id = readMicroCT(*domain_db, MPI_COMM_WORLD);
// Fill the halo (assuming GCW of 1)
array<int, 3> size0 = {(int)input_id.size(0), (int)input_id.size(1),
(int)input_id.size(2)};
ArraySize size1 = {(size_t)Mask->Nx, (size_t)Mask->Ny,
(size_t)Mask->Nz};
ASSERT((int)size1[0] == size0[0] + 2 && (int)size1[1] == size0[1] + 2 &&
(int)size1[2] == size0[2] + 2);
fillHalo<signed char> fill(MPI_COMM_WORLD, Mask->rank_info, size0,
{1, 1, 1}, 0, 1);
Array<signed char> id_view;
id_view.viewRaw(size1, Mask->id.data());
fill.copy(input_id, id_view);
fill.fill(id_view);
} else if (domain_db->keyExists("Filename")) {
auto Filename = domain_db->getScalar<std::string>("Filename");
Mask->Decomp(Filename);
} else {
Mask->ReadIDs();
}
for (int i = 0; i < Nx * Ny * Nz; i++)
id[i] = Mask->id[i]; // save what was read
// Generate the signed distance map
// Initialize the domain and communication
Array<char> id_solid(Nx, Ny, Nz);
// Solve for the position of the solid phase
for (int k = 0; k < Nz; k++) {
for (int j = 0; j < Ny; j++) {
for (int i = 0; i < Nx; i++) {
int n = k * Nx * Ny + j * Nx + i;
// Initialize the solid phase
signed char label = Mask->id[n];
if (label > 0)
id_solid(i, j, k) = 1;
else
id_solid(i, j, k) = 0;
}
}
}
// Initialize the signed distance function
for (int k = 0; k < Nz; k++) {
for (int j = 0; j < Ny; j++) {
for (int i = 0; i < Nx; i++) {
// Initialize distance to +/- 1
Averages->SDs(i, j, k) = 2.0 * double(id_solid(i, j, k)) - 1.0;
}
}
}
// MeanFilter(Averages->SDs);
if (rank == 0)
printf("Initialized solid phase -- Converting to Signed Distance "
"function \n");
CalcDist(Averages->SDs, id_solid, *Mask);
if (rank == 0)
cout << "Domain set." << endl;
}
void ScaLBL_GreyscaleColorModel::AssignComponentLabels() {
// Initialize impermeability solid nodes and grey nodes
// Key input parameters:
// 1. ComponentLabels
// labels for various impermeable minerals and grey nodes
// 2. ComponentAffinity
// for impermeable minerals, this is same as the wettability phase field in the normal color model
// for grey nodes, this is effectively the initial phase field values
// **Convention for ComponentLabels:
// (1) zero and negative integers are for impermeability minerals
// (2) positive integers > 2 are for grey nodes
// (3) label = 1 and 2 are always conserved for open node of non-wetting and wetting phase, respectively.
double *phase;
phase = new double[N];
size_t NLABELS = 0;
signed char VALUE = 0;
double AFFINITY = 0.f;
auto LabelList = greyscaleColor_db->getVector<int>("ComponentLabels");
auto AffinityList =
greyscaleColor_db->getVector<double>("ComponentAffinity");
NLABELS = LabelList.size();
if (NLABELS != AffinityList.size()) {
ERROR("Error: ComponentLabels and ComponentAffinity must be the same "
"length! \n");
}
double *label_count;
double *label_count_global;
label_count = new double[NLABELS];
label_count_global = new double[NLABELS];
// Assign the labels
for (size_t idx = 0; idx < NLABELS; idx++)
label_count[idx] = 0;
for (int k = 0; k < Nz; k++) {
for (int j = 0; j < Ny; j++) {
for (int i = 0; i < Nx; i++) {
int n = k * Nx * Ny + j * Nx + i;
VALUE = id[n];
// Assign the affinity from the paired list
for (size_t idx = 0; idx < NLABELS; idx++) {
//printf("idx=%i, value=%i, %i, \n",idx, VALUE,LabelList[idx]);
if (VALUE == LabelList[idx]) {
AFFINITY = AffinityList[idx];
label_count[idx] += 1.0;
idx = NLABELS;
//Mask->id[n] = 0; // set mask to zero since this is an immobile component
}
}
// fluid labels are reserved
if (VALUE == 1)
AFFINITY = 1.0;
else if (VALUE == 2)
AFFINITY = -1.0;
phase[n] = AFFINITY;
}
}
}
// Set Dm to match Mask
for (int i = 0; i < Nx * Ny * Nz; i++)
Dm->id[i] = Mask->id[i];
for (size_t idx = 0; idx < NLABELS; idx++)
label_count_global[idx] = Dm->Comm.sumReduce(label_count[idx]);
if (rank == 0) {
printf("Number of component labels: %lu \n", NLABELS);
for (unsigned int idx = 0; idx < NLABELS; idx++) {
VALUE = LabelList[idx];
AFFINITY = AffinityList[idx];
double volume_fraction =
double(label_count_global[idx]) /
double((Nx - 2) * (Ny - 2) * (Nz - 2) * nprocs);
printf(" label=%d, affinity=%f, volume fraction==%f\n", VALUE,
AFFINITY, volume_fraction);
}
}
ScaLBL_CopyToDevice(Phi, phase, N * sizeof(double));
ScaLBL_Comm->Barrier();
delete[] phase;
}
void ScaLBL_GreyscaleColorModel::
AssignGreySolidLabels() //apply capillary penalty wetting strength W
{
// ONLY initialize grey nodes
// Key input parameters:
// 1. GreySolidLabels
// labels for grey nodes
// 2. GreySolidAffinity
// ranges [-1,1]
// water-wet > 0
// oil-wet < 0
// neutral = 0 (i.e. no penalty)
double *GreySolidW_host = new double[Np];
double *GreySn_host = new double[Np];
double *GreySw_host = new double[Np];
double *GreyKn_host = new double[Np];
double *GreyKw_host = new double[Np];
size_t NLABELS = 0;
signed char VALUE = 0;
double AFFINITY = 0.f;
double Sn, Sw; //end-point saturation of greynodes set by users
double Kn, Kw; // endpoint effective permeability
auto LabelList = greyscaleColor_db->getVector<int>("GreySolidLabels");
auto AffinityList =
greyscaleColor_db->getVector<double>("GreySolidAffinity");
auto SnList = greyscaleColor_db->getVector<double>("grey_endpoint_A");
auto SwList = greyscaleColor_db->getVector<double>("grey_endpoint_B");
auto KnList =
greyscaleColor_db->getVector<double>("grey_endpoint_permeability_A");
auto KwList =
greyscaleColor_db->getVector<double>("grey_endpoint_permeability_B");
NLABELS = LabelList.size();
if (NLABELS != AffinityList.size()) {
ERROR("Error: GreySolidLabels and GreySolidAffinity must be the same "
"length! \n");
}
if (NLABELS != SnList.size() || NLABELS != SwList.size()) {
ERROR("Error: GreySolidLabels, grey_endpoint_A, and grey_endpoint_B "
"must be the same length! \n");
}
if (NLABELS != KnList.size() || NLABELS != KwList.size()) {
ERROR("Error: GreySolidLabels, grey_endpoint_permeability_A, and "
"grey_endpoint_permeability_B must be the same length! \n");
}
for (int k = 0; k < Nz; k++) {
for (int j = 0; j < Ny; j++) {
for (int i = 0; i < Nx; i++) {
int n = k * Nx * Ny + j * Nx + i;
VALUE = id[n];
AFFINITY =
0.f; //all nodes except the specified grey nodes have grey-solid affinity = 0.0
Sn = 99.0;
Sw = -99.0;
Kn = 0.0;
Kw = 0.0;
// Assign the affinity from the paired list
for (unsigned int idx = 0; idx < NLABELS; idx++) {
if (VALUE == LabelList[idx]) {
AFFINITY = AffinityList[idx];
Sn = SnList[idx];
Sw = SwList[idx];
Kn = KnList[idx];
Kw = KwList[idx];
idx = NLABELS;
}
}
int idx = Map(i, j, k);
if (!(idx < 0)) {
GreySolidW_host[idx] = AFFINITY;
GreySn_host[idx] = Sn;
GreySw_host[idx] = Sw;
GreyKn_host[idx] = Kn;
GreyKw_host[idx] = Kw;
}
}
}
}
if (rank == 0) {
printf("Number of Grey-solid labels: %lu \n", NLABELS);
for (unsigned int idx = 0; idx < NLABELS; idx++) {
VALUE = LabelList[idx];
AFFINITY = AffinityList[idx];
Sn = SnList[idx];
Sw = SwList[idx];
//printf(" grey-solid label=%d, grey-solid affinity=%f\n",VALUE,AFFINITY);
printf(" grey-solid label=%d, grey-solid affinity=%.3g, "
"grey-solid Sn=%.3g, grey-solid Sw=%.3g\n",
VALUE, AFFINITY, Sn, Sw);
}
printf("NOTE: grey-solid affinity>0: water-wet || grey-solid "
"affinity<0: oil-wet \n");
}
ScaLBL_CopyToDevice(GreySolidW, GreySolidW_host, Np * sizeof(double));
ScaLBL_CopyToDevice(GreySn, GreySn_host, Np * sizeof(double));
ScaLBL_CopyToDevice(GreySw, GreySw_host, Np * sizeof(double));
ScaLBL_CopyToDevice(GreyKn, GreySn_host, Np * sizeof(double));
ScaLBL_CopyToDevice(GreyKw, GreySw_host, Np * sizeof(double));
ScaLBL_Comm->Barrier();
delete[] GreySolidW_host;
delete[] GreySn_host;
delete[] GreySw_host;
}
////----------------------------------------------------------------------------------------------------------//
void ScaLBL_GreyscaleColorModel::AssignGreyPoroPermLabels() {
double *Porosity, *Permeability;
Porosity = new double[Np];
Permeability = new double[Np];
size_t NLABELS = 0;
signed char VALUE = 0;
double POROSITY =
1.f; //default: label 1 or 2, i.e. open nodes and porosity=1.0
double PERMEABILITY = 1.f;
auto LabelList = greyscaleColor_db->getVector<int>("GreySolidLabels");
auto PorosityList = greyscaleColor_db->getVector<double>("PorosityList");
auto PermeabilityList =
greyscaleColor_db->getVector<double>("PermeabilityList");
NLABELS = LabelList.size();
if (LabelList.size() != PorosityList.size()) {
ERROR("Error: GreySolidLabels and PorosityList must be the same "
"length! \n");
}
double *label_count;
double *label_count_global;
label_count = new double[NLABELS];
label_count_global = new double[NLABELS];
// Assign the labels
for (size_t idx = 0; idx < NLABELS; idx++)
label_count[idx] = 0;
for (int k = 0; k < Nz; k++) {
for (int j = 0; j < Ny; j++) {
for (int i = 0; i < Nx; i++) {
int n = k * Nx * Ny + j * Nx + i;
VALUE = id[n];
POROSITY =
1.f; //default: label 1 or 2, i.e. open nodes and porosity=1.0
// Assign the affinity from the paired list
for (size_t idx = 0; idx < NLABELS; idx++) {
//printf("idx=%i, value=%i, %i, \n",idx, VALUE,LabelList[idx]);
if (VALUE == LabelList[idx]) {
POROSITY = PorosityList[idx];
label_count[idx] += 1.0;
idx = NLABELS;
//Mask->id[n] = 0; // set mask to zero since this is an immobile component
}
}
int idx = Map(i, j, k);
if (!(idx < 0)) {
if (POROSITY <= 0.0) {
ERROR("Error: Porosity for grey voxels must be 0.0 < "
"Porosity <= 1.0 !\n");
} else {
Porosity[idx] = POROSITY;
}
}
}
}
}
if (NLABELS != PermeabilityList.size()) {
ERROR("Error: GreySolidLabels and PermeabilityList must be the same "
"length! \n");
}
for (int k = 0; k < Nz; k++) {
for (int j = 0; j < Ny; j++) {
for (int i = 0; i < Nx; i++) {
int n = k * Nx * Ny + j * Nx + i;
VALUE = id[n];
PERMEABILITY = 1.f;
// Assign the affinity from the paired list
for (unsigned int idx = 0; idx < NLABELS; idx++) {
//printf("idx=%i, value=%i, %i, \n",idx, VALUE,LabelList[idx]);
if (VALUE == LabelList[idx]) {
PERMEABILITY = PermeabilityList[idx];
idx = NLABELS;
//Mask->id[n] = 0; // set mask to zero since this is an immobile component
}
}
int idx = Map(i, j, k);
if (!(idx < 0)) {
if (PERMEABILITY <= 0.0) {
ERROR("Error: Permeability for grey voxel must be > "
"0.0 ! \n");
} else {
Permeability[idx] =
PERMEABILITY / Dm->voxel_length / Dm->voxel_length;
}
}
}
}
}
// Set Dm to match Mask
for (int i = 0; i < Nx * Ny * Nz; i++)
Dm->id[i] = Mask->id[i];
for (size_t idx = 0; idx < NLABELS; idx++)
label_count_global[idx] = Dm->Comm.sumReduce(label_count[idx]);
//Initialize a weighted porosity after considering grey voxels
GreyPorosity = 0.0;
for (unsigned int idx = 0; idx < NLABELS; idx++) {
double volume_fraction =
double(label_count_global[idx]) /
double((Nx - 2) * (Ny - 2) * (Nz - 2) * nprocs);
GreyPorosity += volume_fraction * PorosityList[idx];
}
if (rank == 0) {
printf("Image resolution: %.5g [um/voxel]\n", Dm->voxel_length);
printf("Number of Grey-fluid labels: %lu \n", NLABELS);
for (unsigned int idx = 0; idx < NLABELS; idx++) {
VALUE = LabelList[idx];
POROSITY = PorosityList[idx];
PERMEABILITY = PermeabilityList[idx];
double volume_fraction =
double(label_count_global[idx]) /
double((Nx - 2) * (Ny - 2) * (Nz - 2) * nprocs);
printf(" grey-fluid label=%d, porosity=%.3g, permeability=%.3g "
"[um^2] (=%.3g [voxel^2]), volume fraction=%.3g\n",
VALUE, POROSITY, PERMEABILITY,
PERMEABILITY / Dm->voxel_length / Dm->voxel_length,
volume_fraction);
printf(" effective porosity=%.3g\n",
volume_fraction * POROSITY);
}
printf("The weighted porosity, considering both open and grey voxels, "
"is %.3g\n",
GreyPorosity);
}
ScaLBL_CopyToDevice(Porosity_dvc, Porosity, Np * sizeof(double));
ScaLBL_CopyToDevice(Permeability_dvc, Permeability, Np * sizeof(double));
ScaLBL_Comm->Barrier();
delete[] Porosity;
delete[] Permeability;
}
void ScaLBL_GreyscaleColorModel::Create() {
/*
* This function creates the variables needed to run a LBM
*/
//.........................................................
// don't perform computations at the eight corners
//id[0] = id[Nx-1] = id[(Ny-1)*Nx] = id[(Ny-1)*Nx + Nx-1] = 0;
//id[(Nz-1)*Nx*Ny] = id[(Nz-1)*Nx*Ny+Nx-1] = id[(Nz-1)*Nx*Ny+(Ny-1)*Nx] = id[(Nz-1)*Nx*Ny+(Ny-1)*Nx + Nx-1] = 0;
//.........................................................
// Initialize communication structures in averaging domain
for (int i = 0; i < Nx * Ny * Nz; i++)
Dm->id[i] = Mask->id[i];
Mask->CommInit();
Np = Mask->PoreCount();
//...........................................................................
if (rank == 0)
printf("Create ScaLBL_Communicator \n");
// Create a communicator for the device (will use optimized layout)
// ScaLBL_Communicator ScaLBL_Comm(Mask); // original
ScaLBL_Comm =
std::shared_ptr<ScaLBL_Communicator>(new ScaLBL_Communicator(Mask));
ScaLBL_Comm_Regular =
std::shared_ptr<ScaLBL_Communicator>(new ScaLBL_Communicator(Mask));
int Npad = (Np / 16 + 2) * 16;
if (rank == 0)
printf("Set up memory efficient layout, %i | %i | %i \n", Np, Npad, N);
Map.resize(Nx, Ny, Nz);
Map.fill(-2);
auto neighborList = new int[18 * Npad];
Np = ScaLBL_Comm->MemoryOptimizedLayoutAA(Map, neighborList,
Mask->id.data(), Np, 1);
comm.barrier();
//...........................................................................
// MAIN VARIABLES ALLOCATED HERE
//...........................................................................
// LBM variables
if (rank == 0)
printf("Allocating distributions \n");
//......................device distributions.................................
dist_mem_size = Np * sizeof(double);
neighborSize = 18 * (Np * sizeof(int));
//...........................................................................
ScaLBL_AllocateDeviceMemory((void **)&NeighborList, neighborSize);
ScaLBL_AllocateDeviceMemory((void **)&dvcMap, sizeof(int) * Np);
ScaLBL_AllocateDeviceMemory((void **)&fq, 19 * dist_mem_size);
ScaLBL_AllocateDeviceMemory((void **)&Aq, 7 * dist_mem_size);
ScaLBL_AllocateDeviceMemory((void **)&Bq, 7 * dist_mem_size);
ScaLBL_AllocateDeviceMemory((void **)&Den, 2 * dist_mem_size);
ScaLBL_AllocateDeviceMemory((void **)&Phi, sizeof(double) * Nx * Ny * Nz);
//ScaLBL_AllocateDeviceMemory((void **) &Psi, sizeof(double)*Nx*Ny*Nz);//greyscale potential
ScaLBL_AllocateDeviceMemory((void **)&Pressure, sizeof(double) * Np);
ScaLBL_AllocateDeviceMemory((void **)&Velocity, 3 * sizeof(double) * Np);
ScaLBL_AllocateDeviceMemory((void **)&MobilityRatio, sizeof(double) * Np);
//ScaLBL_AllocateDeviceMemory((void **) &GreySolidPhi, sizeof(double)*Nx*Ny*Nz);
//ScaLBL_AllocateDeviceMemory((void **) &GreySolidGrad, 3*sizeof(double)*Np);
ScaLBL_AllocateDeviceMemory((void **)&GreySolidW, sizeof(double) * Np);
ScaLBL_AllocateDeviceMemory((void **)&GreySn, sizeof(double) * Np);
ScaLBL_AllocateDeviceMemory((void **)&GreySw, sizeof(double) * Np);
ScaLBL_AllocateDeviceMemory((void **)&GreyKn, sizeof(double) * Np);
ScaLBL_AllocateDeviceMemory((void **)&GreyKw, sizeof(double) * Np);
ScaLBL_AllocateDeviceMemory((void **)&Porosity_dvc, sizeof(double) * Np);
ScaLBL_AllocateDeviceMemory((void **)&Permeability_dvc,
sizeof(double) * Np);
//...........................................................................
// Update GPU data structures
if (rank == 0)
printf("Setting up device map and neighbor list \n");
fflush(stdout);
int *TmpMap;
TmpMap = new int[Np];
for (int k = 1; k < Nz - 1; k++) {
for (int j = 1; j < Ny - 1; j++) {
for (int i = 1; i < Nx - 1; i++) {
int idx = Map(i, j, k);
if (!(idx < 0))
TmpMap[idx] = k * Nx * Ny + j * Nx + i;
}
}
}
// check that TmpMap is valid
for (int idx = 0; idx < ScaLBL_Comm->LastExterior(); idx++) {
auto n = TmpMap[idx];
if (n > Nx * Ny * Nz) {
printf("Bad value! idx=%i \n", n);
TmpMap[idx] = Nx * Ny * Nz - 1;
}
}
for (int idx = ScaLBL_Comm->FirstInterior();
idx < ScaLBL_Comm->LastInterior(); idx++) {
auto n = TmpMap[idx];
if (n > Nx * Ny * Nz) {
printf("Bad value! idx=%i \n", n);
TmpMap[idx] = Nx * Ny * Nz - 1;
}
}
ScaLBL_CopyToDevice(dvcMap, TmpMap, sizeof(int) * Np);
ScaLBL_Comm->Barrier();
delete[] TmpMap;
// copy the neighbor list
ScaLBL_CopyToDevice(NeighborList, neighborList, neighborSize);
// initialize phi based on PhaseLabel (include solid component labels)
AssignComponentLabels(); //do open/black/grey nodes initialization
AssignGreySolidLabels();
AssignGreyPoroPermLabels();
Averages->SetParams(rhoA, rhoB, tauA, tauB, Fx, Fy, Fz, alpha, beta,
GreyPorosity);
ScaLBL_Comm->RegularLayout(
Map, Porosity_dvc,
Averages->Porosity); //porosity doesn't change over time
}
void ScaLBL_GreyscaleColorModel::Initialize() {
/*
* This function initializes model
*/
if (rank == 0)
printf("Initializing distributions \n");
ScaLBL_D3Q19_Init(fq, Np);
//ScaLBL_D3Q19_GreyscaleColor_Init(fq, Porosity_dvc, Np);
if (rank == 0)
printf("Initializing phase field \n");
ScaLBL_PhaseField_Init(dvcMap, Phi, Den, Aq, Bq, 0,
ScaLBL_Comm->LastExterior(), Np);
ScaLBL_PhaseField_Init(dvcMap, Phi, Den, Aq, Bq,
ScaLBL_Comm->FirstInterior(),
ScaLBL_Comm->LastInterior(), Np);
if (Restart == true) {
if (rank == 0) {
printf("Reading restart file! \n");
}
// Read in the restart file to CPU buffers
int *TmpMap;
TmpMap = new int[Np];
double *cPhi, *cDist, *cDen;
cPhi = new double[N];
cDen = new double[2 * Np];
cDist = new double[19 * Np];
ScaLBL_CopyToHost(TmpMap, dvcMap, Np * sizeof(int));
ScaLBL_CopyToHost(cPhi, Phi, N * sizeof(double));
ifstream File(LocalRestartFile, ios::binary);
int idx;
double value, va, vb;
for (int n = 0; n < Np; n++) {
File.read((char *)&va, sizeof(va));
File.read((char *)&vb, sizeof(vb));
cDen[n] = va;
cDen[Np + n] = vb;
}
for (int n = 0; n < Np; n++) {
// Read the distributions
for (int q = 0; q < 19; q++) {
File.read((char *)&value, sizeof(value));
cDist[q * Np + n] = value;
}
}
File.close();
for (int n = 0; n < ScaLBL_Comm->LastExterior(); n++) {
va = cDen[n];
vb = cDen[Np + n];
value = (va - vb) / (va + vb);
idx = TmpMap[n];
if (!(idx < 0) && idx < N)
cPhi[idx] = value;
}
for (int n = ScaLBL_Comm->FirstInterior();
n < ScaLBL_Comm->LastInterior(); n++) {
va = cDen[n];
vb = cDen[Np + n];
value = (va - vb) / (va + vb);
idx = TmpMap[n];
if (!(idx < 0) && idx < N)
cPhi[idx] = value;
}
// Copy the restart data to the GPU
ScaLBL_CopyToDevice(Den, cDen, 2 * Np * sizeof(double));
ScaLBL_CopyToDevice(fq, cDist, 19 * Np * sizeof(double));
ScaLBL_CopyToDevice(Phi, cPhi, N * sizeof(double));
ScaLBL_Comm->Barrier();
comm.barrier();
if (rank == 0)
printf("Initializing phase field from Restart\n");
ScaLBL_PhaseField_InitFromRestart(Den, Aq, Bq, 0,
ScaLBL_Comm->LastExterior(), Np);
ScaLBL_PhaseField_InitFromRestart(Den, Aq, Bq,
ScaLBL_Comm->FirstInterior(),
ScaLBL_Comm->LastInterior(), Np);
}
// establish reservoirs for external bC
if (BoundaryCondition == 1 || BoundaryCondition == 2 ||
BoundaryCondition == 3 || BoundaryCondition == 4) {
if (Dm->kproc() == 0) {
ScaLBL_SetSlice_z(Phi, 1.0, Nx, Ny, Nz, 0);
ScaLBL_SetSlice_z(Phi, 1.0, Nx, Ny, Nz, 1);
ScaLBL_SetSlice_z(Phi, 1.0, Nx, Ny, Nz, 2);
}
if (Dm->kproc() == nprocz - 1) {
ScaLBL_SetSlice_z(Phi, -1.0, Nx, Ny, Nz, Nz - 1);
ScaLBL_SetSlice_z(Phi, -1.0, Nx, Ny, Nz, Nz - 2);
ScaLBL_SetSlice_z(Phi, -1.0, Nx, Ny, Nz, Nz - 3);
}
}
//ScaLBL_CopyToHost(Averages->Phi.data(),Phi,N*sizeof(double));
}
void ScaLBL_GreyscaleColorModel::Run() {
int nprocs = nprocx * nprocy * nprocz;
const RankInfoStruct rank_info(rank, nprocx, nprocy, nprocz);
bool SET_CAPILLARY_NUMBER = false;
bool RESCALE_FORCE = false;
bool MORPH_ADAPT = false;
bool USE_MORPH = false;
bool USE_SEED = false;
bool USE_DIRECT = false;
int MAX_MORPH_TIMESTEPS =
50000; // maximum number of LBM timesteps to spend in morphological adaptation routine
int MIN_STEADY_TIMESTEPS = 100000;
int MAX_STEADY_TIMESTEPS = 200000;
int RESCALE_FORCE_AFTER_TIMESTEP = 0;
int RAMP_TIMESTEPS =
0; //50000; // number of timesteps to run initially (to get a reasonable velocity field before other pieces kick in)
int CURRENT_MORPH_TIMESTEPS =
0; // counter for number of timesteps spent in morphological adaptation routine (reset each time)
int CURRENT_STEADY_TIMESTEPS =
0; // counter for number of timesteps spent in morphological adaptation routine (reset each time)
int morph_interval = 100000;
int analysis_interval =
1000; // number of timesteps in between in situ analysis
int morph_timesteps = 0;
double morph_delta = 0.0;
double seed_water = 0.0;
double capillary_number = 0.0;
double tolerance = 0.01;
double Ca_previous = 0.f;
double initial_volume = 0.0;
double delta_volume = 0.0;
double delta_volume_target = 0.0;
//TODO -------- For temporary use - should be included in the analysis framework later -------------
int visualization_interval = 50000;
int restart_interval = 100000;
if (analysis_db->keyExists("visualization_interval")) {
visualization_interval =
analysis_db->getScalar<int>("visualization_interval");
}
if (analysis_db->keyExists("restart_interval")) {
restart_interval = analysis_db->getScalar<int>("restart_interval");
}
//-------------------------------------------------------------------------------------------------
/* history for morphological algoirthm */
double KRA_MORPH_FACTOR = 0.5;
double volA_prev = 0.0;
double log_krA_prev = 1.0;
double log_krA_target = 1.0;
double log_krA = 1.0;
double slope_krA_volume = 0.0;
if (greyscaleColor_db->keyExists("vol_A_previous")) {
volA_prev = greyscaleColor_db->getScalar<double>("vol_A_previous");
}
if (greyscaleColor_db->keyExists("log_krA_previous")) {
log_krA_prev = greyscaleColor_db->getScalar<double>("log_krA_previous");
}
if (greyscaleColor_db->keyExists("krA_morph_factor")) {
KRA_MORPH_FACTOR =
greyscaleColor_db->getScalar<double>("krA_morph_factor");
}
/* defaults for simulation protocols */
auto protocol =
greyscaleColor_db->getWithDefault<std::string>("protocol", "none");
if (protocol == "seed water") {
morph_delta = -0.05;
seed_water = 0.01;
USE_SEED = true;
USE_MORPH = true;
}
if (greyscaleColor_db->keyExists("capillary_number")) {
capillary_number =
greyscaleColor_db->getScalar<double>("capillary_number");
SET_CAPILLARY_NUMBER = true;
}
if (greyscaleColor_db->keyExists("rescale_force_after_timestep")) {
RESCALE_FORCE_AFTER_TIMESTEP =
greyscaleColor_db->getScalar<int>("rescale_force_after_timestep");
RESCALE_FORCE = true;
}
if (greyscaleColor_db->keyExists("timestep")) {
timestep = greyscaleColor_db->getScalar<int>("timestep");
}
if (BoundaryCondition != 0 && BoundaryCondition != 5 &&
SET_CAPILLARY_NUMBER == true) {
if (rank == 0)
printf("WARINING: capillary number target only supported for BC = "
"0 or 5 \n");
SET_CAPILLARY_NUMBER = false;
}
if (analysis_db->keyExists("seed_water")) {
seed_water = analysis_db->getScalar<double>("seed_water");
if (rank == 0)
printf("Seed water in oil %f (seed_water) \n", seed_water);
USE_SEED = true;
}
if (analysis_db->keyExists("morph_delta")) {
morph_delta = analysis_db->getScalar<double>("morph_delta");
if (rank == 0)
printf("Target volume change %f (morph_delta) \n", morph_delta);
}
if (analysis_db->keyExists("morph_interval")) {
morph_interval = analysis_db->getScalar<int>("morph_interval");
USE_MORPH = true;
}
if (analysis_db->keyExists("tolerance")) {
tolerance = analysis_db->getScalar<double>("tolerance");
}
if (analysis_db->keyExists("analysis_interval")) {
analysis_interval = analysis_db->getScalar<int>("analysis_interval");
}
if (analysis_db->keyExists("min_steady_timesteps")) {
MIN_STEADY_TIMESTEPS =
analysis_db->getScalar<int>("min_steady_timesteps");
}
if (analysis_db->keyExists("max_steady_timesteps")) {
MAX_STEADY_TIMESTEPS =
analysis_db->getScalar<int>("max_steady_timesteps");
}
if (analysis_db->keyExists("max_morph_timesteps")) {
MAX_MORPH_TIMESTEPS =
analysis_db->getScalar<int>("max_morph_timesteps");
}
if (rank == 0) {
printf("********************************************************\n");
if (protocol == "seed water") {
printf(" using protocol = seed water \n");
printf(" min_steady_timesteps = %i \n", MIN_STEADY_TIMESTEPS);
printf(" max_steady_timesteps = %i \n", MAX_STEADY_TIMESTEPS);
printf(" tolerance = %f \n", tolerance);
printf(" morph_delta = %f \n", morph_delta);
printf(" seed_water = %f \n", seed_water);
}
printf("No. of timesteps: %i \n", timestepMax);
fflush(stdout);
}
//.......create and start timer............
ScaLBL_Comm->Barrier();
comm.barrier();
//.........................................
//************ MAIN ITERATION LOOP ***************************************/
PROFILE_START("Loop");
//std::shared_ptr<Database> analysis_db;
auto current_db = db->cloneDatabase();
//runAnalysis analysis( current_db, rank_info, ScaLBL_Comm, Dm, Np, Regular, Map );
//analysis.createThreads( analysis_method, 4 );
auto t1 = std::chrono::system_clock::now();
while (timestep < timestepMax) {
//if ( rank==0 ) { printf("Running timestep %i (%i MB)\n",timestep+1,(int)(Utilities::getMemoryUsage()/1048576)); }
PROFILE_START("Update");
// *************ODD TIMESTEP*************
timestep++;
// Compute the Phase indicator field
// Read for Aq, Bq happens in this routine (requires communication)
ScaLBL_Comm->BiSendD3Q7AA(Aq, Bq); //READ FROM NORMAL
ScaLBL_D3Q7_AAodd_PhaseField(NeighborList, dvcMap, Aq, Bq, Den, Phi,
ScaLBL_Comm->FirstInterior(),
ScaLBL_Comm->LastInterior(), Np);
//ScaLBL_Update_GreyscalePotential(dvcMap,Phi,Psi,Porosity_dvc,Permeability_dvc,alpha,W,ScaLBL_Comm->FirstInterior(), ScaLBL_Comm->LastInterior(), Np);
ScaLBL_Comm->BiRecvD3Q7AA(Aq, Bq); //WRITE INTO OPPOSITE
ScaLBL_Comm->Barrier();
ScaLBL_D3Q7_AAodd_PhaseField(NeighborList, dvcMap, Aq, Bq, Den, Phi, 0,
ScaLBL_Comm->LastExterior(), Np);
//ScaLBL_Update_GreyscalePotential(dvcMap,Phi,Psi,Porosity_dvc,Permeability_dvc,alpha,W,0,ScaLBL_Comm->LastExterior(), Np);
// Perform the collision operation
ScaLBL_Comm->SendD3Q19AA(fq); //READ FROM NORMAL
if (BoundaryCondition > 0 && BoundaryCondition < 5) {
ScaLBL_Comm->Color_BC_z(dvcMap, Phi, Den, inletA, inletB);
ScaLBL_Comm->Color_BC_Z(dvcMap, Phi, Den, outletA, outletB);
}
// Halo exchange for phase field
ScaLBL_Comm_Regular->SendHalo(Phi);
ScaLBL_D3Q19_AAodd_GreyscaleColor_CP(
NeighborList, dvcMap, fq, Aq, Bq, Den, Phi, GreySolidW, GreySn,
GreySw, GreyKn, GreyKw, Porosity_dvc, Permeability_dvc, Velocity,
MobilityRatio, Pressure, rhoA, rhoB, tauA, tauB, tauA_eff, tauB_eff,
alpha, beta, Fx, Fy, Fz, RecoloringOff, Nx, Nx * Ny,
ScaLBL_Comm->FirstInterior(), ScaLBL_Comm->LastInterior(), Np);
ScaLBL_Comm_Regular->RecvHalo(Phi);
ScaLBL_Comm->RecvD3Q19AA(fq); //WRITE INTO OPPOSITE
ScaLBL_Comm->Barrier();
// Set BCs
if (BoundaryCondition == 3) {
ScaLBL_Comm->D3Q19_Pressure_BC_z(NeighborList, fq, din, timestep);
ScaLBL_Comm->D3Q19_Pressure_BC_Z(NeighborList, fq, dout, timestep);
}
if (BoundaryCondition == 4) {
din =
ScaLBL_Comm->D3Q19_Flux_BC_z(NeighborList, fq, flux, timestep);
ScaLBL_Comm->D3Q19_Pressure_BC_Z(NeighborList, fq, dout, timestep);
} else if (BoundaryCondition == 5) {
ScaLBL_Comm->D3Q19_Reflection_BC_z(fq);
ScaLBL_Comm->D3Q19_Reflection_BC_Z(fq);
}
ScaLBL_D3Q19_AAodd_GreyscaleColor_CP(
NeighborList, dvcMap, fq, Aq, Bq, Den, Phi, GreySolidW, GreySn,
GreySw, GreyKn, GreyKw, Porosity_dvc, Permeability_dvc, Velocity,
MobilityRatio, Pressure, rhoA, rhoB, tauA, tauB, tauA_eff, tauB_eff,
alpha, beta, Fx, Fy, Fz, RecoloringOff, Nx, Nx * Ny, 0,
ScaLBL_Comm->LastExterior(), Np);
ScaLBL_Comm->Barrier();
// *************EVEN TIMESTEP*************
timestep++;
// Compute the Phase indicator field
ScaLBL_Comm->BiSendD3Q7AA(Aq, Bq); //READ FROM NORMAL
ScaLBL_D3Q7_AAeven_PhaseField(dvcMap, Aq, Bq, Den, Phi,
ScaLBL_Comm->FirstInterior(),
ScaLBL_Comm->LastInterior(), Np);
//ScaLBL_Update_GreyscalePotential(dvcMap,Phi,Psi,Porosity_dvc,Permeability_dvc,alpha,W,ScaLBL_Comm->FirstInterior(), ScaLBL_Comm->LastInterior(), Np);
ScaLBL_Comm->BiRecvD3Q7AA(Aq, Bq); //WRITE INTO OPPOSITE
ScaLBL_Comm->Barrier();
ScaLBL_D3Q7_AAeven_PhaseField(dvcMap, Aq, Bq, Den, Phi, 0,
ScaLBL_Comm->LastExterior(), Np);
//ScaLBL_Update_GreyscalePotential(dvcMap,Phi,Psi,Porosity_dvc,Permeability_dvc,alpha,W,0,ScaLBL_Comm->LastExterior(), Np);
// Perform the collision operation
ScaLBL_Comm->SendD3Q19AA(fq); //READ FORM NORMAL
// Halo exchange for phase field
if (BoundaryCondition > 0 && BoundaryCondition < 5) {
ScaLBL_Comm->Color_BC_z(dvcMap, Phi, Den, inletA, inletB);
ScaLBL_Comm->Color_BC_Z(dvcMap, Phi, Den, outletA, outletB);
}
ScaLBL_Comm_Regular->SendHalo(Phi);
ScaLBL_D3Q19_AAeven_GreyscaleColor_CP(
dvcMap, fq, Aq, Bq, Den, Phi, GreySolidW, GreySn, GreySw, GreyKn,
GreyKw, Porosity_dvc, Permeability_dvc, Velocity, MobilityRatio,
Pressure, rhoA, rhoB, tauA, tauB, tauA_eff, tauB_eff, alpha, beta,
Fx, Fy, Fz, RecoloringOff, Nx, Nx * Ny,
ScaLBL_Comm->FirstInterior(), ScaLBL_Comm->LastInterior(), Np);
ScaLBL_Comm_Regular->RecvHalo(Phi);
ScaLBL_Comm->RecvD3Q19AA(fq); //WRITE INTO OPPOSITE
ScaLBL_Comm->Barrier();
// Set boundary conditions
if (BoundaryCondition == 3) {
ScaLBL_Comm->D3Q19_Pressure_BC_z(NeighborList, fq, din, timestep);
ScaLBL_Comm->D3Q19_Pressure_BC_Z(NeighborList, fq, dout, timestep);
} else if (BoundaryCondition == 4) {
din =
ScaLBL_Comm->D3Q19_Flux_BC_z(NeighborList, fq, flux, timestep);
ScaLBL_Comm->D3Q19_Pressure_BC_Z(NeighborList, fq, dout, timestep);
} else if (BoundaryCondition == 5) {
ScaLBL_Comm->D3Q19_Reflection_BC_z(fq);
ScaLBL_Comm->D3Q19_Reflection_BC_Z(fq);
}
ScaLBL_D3Q19_AAeven_GreyscaleColor_CP(
dvcMap, fq, Aq, Bq, Den, Phi, GreySolidW, GreySn, GreySw, GreyKn,
GreyKw, Porosity_dvc, Permeability_dvc, Velocity, MobilityRatio,
Pressure, rhoA, rhoB, tauA, tauB, tauA_eff, tauB_eff, alpha, beta,
Fx, Fy, Fz, RecoloringOff, Nx, Nx * Ny, 0,
ScaLBL_Comm->LastExterior(), Np);
ScaLBL_Comm->Barrier();
//************************************************************************
PROFILE_STOP("Update");
//TODO For temporary use - writing Restart and Vis files should be included in the analysis framework in the future
if (timestep % restart_interval == 0) {
//Use rank=0 write out Restart.db
if (rank == 0) {
greyscaleColor_db->putScalar<int>("timestep", timestep);
greyscaleColor_db->putScalar<bool>("Restart", true);
current_db->putDatabase("Color", greyscaleColor_db);
std::ofstream OutStream("Restart.db");
current_db->print(OutStream, "");
OutStream.close();
}
//Write out Restart data.
std::shared_ptr<double> cDen;
std::shared_ptr<double> cfq;
cDen = std::shared_ptr<double>(new double[2 * Np],
DeleteArray<double>);
cfq = std::shared_ptr<double>(new double[19 * Np],
DeleteArray<double>);
ScaLBL_CopyToHost(
cDen.get(), Den,
2 * Np * sizeof(double)); // Copy restart data to the CPU
ScaLBL_CopyToHost(
cfq.get(), fq,
19 * Np * sizeof(double)); // Copy restart data to the CPU
ofstream RESTARTFILE(LocalRestartFile, ios::binary);
double value;
for (int n = 0; n < Np; n++) {
// Write the two density values
value = cDen.get()[n];
RESTARTFILE.write((char *)&value, sizeof(value));
value = cDen.get()[Np + n];
RESTARTFILE.write((char *)&value, sizeof(value));
}
for (int n = 0; n < Np; n++) {
// Write the distributions
for (int q = 0; q < 19; q++) {
value = cfq.get()[q * Np + n];
RESTARTFILE.write((char *)&value, sizeof(value));
}
}
RESTARTFILE.close();
comm.barrier();
}
if (timestep % visualization_interval == 0) {
WriteVisFiles();
}
//-----------------------------------------------------------------------------------------------------------------
if (rank == 0 && timestep % analysis_interval == 0 &&
BoundaryCondition == 4) {
printf("%i %.5g \n", timestep, din);
}
if (timestep % analysis_interval == 0) {
ScaLBL_Comm->RegularLayout(Map, Pressure, Averages->Pressure);
ScaLBL_Comm->RegularLayout(Map, MobilityRatio,
Averages->MobilityRatio);
ScaLBL_Comm->RegularLayout(Map, &Den[0], Averages->Rho_n);
ScaLBL_Comm->RegularLayout(Map, &Den[Np], Averages->Rho_w);
ScaLBL_Comm->RegularLayout(Map, &Velocity[0], Averages->Vel_x);
ScaLBL_Comm->RegularLayout(Map, &Velocity[Np], Averages->Vel_y);
ScaLBL_Comm->RegularLayout(Map, &Velocity[2 * Np], Averages->Vel_z);
Averages->Basic();
}
// allow initial ramp-up to get closer to steady state
if (timestep > RAMP_TIMESTEPS && timestep % analysis_interval == 0 &&
USE_MORPH) {
//analysis.finish();
CURRENT_STEADY_TIMESTEPS += analysis_interval;
double muA = rhoA * (tauA - 0.5) / 3.f;
double muB = rhoB * (tauB - 0.5) / 3.f;
double force_mag = sqrt(Fx * Fx + Fy * Fy + Fz * Fz);
if (force_mag == 0.0) {
force_mag = 1.0;
}
double current_saturation = Averages->saturation;
double volA = current_saturation * GreyPorosity;
double volB = (1.0 - current_saturation) * GreyPorosity;
double flow_rate_A = Averages->oil_flow_rate;
double flow_rate_B = Averages->water_flow_rate;
double Ca =
fabs(muA * flow_rate_A + muB * flow_rate_B) / (6.0 * alpha);
if (morph_timesteps > morph_interval) {
bool isSteady = false;
if ((fabs((Ca - Ca_previous) / Ca) < tolerance &&
CURRENT_STEADY_TIMESTEPS > MIN_STEADY_TIMESTEPS))
isSteady = true;
if (CURRENT_STEADY_TIMESTEPS > MAX_STEADY_TIMESTEPS)
isSteady = true;
if (RESCALE_FORCE == true && SET_CAPILLARY_NUMBER == true &&
CURRENT_STEADY_TIMESTEPS > RESCALE_FORCE_AFTER_TIMESTEP) {
RESCALE_FORCE = false;
double RESCALE_FORCE_FACTOR = capillary_number / Ca;
if (RESCALE_FORCE_FACTOR > 2.0)
RESCALE_FORCE_FACTOR = 2.0;
if (RESCALE_FORCE_FACTOR < 0.5)
RESCALE_FORCE_FACTOR = 0.5;
Fx *= RESCALE_FORCE_FACTOR;
Fy *= RESCALE_FORCE_FACTOR;
Fz *= RESCALE_FORCE_FACTOR;
force_mag = sqrt(Fx * Fx + Fy * Fy + Fz * Fz);
if (force_mag > 1e-3) {
Fx *= 1e-3 / force_mag; // impose ceiling for stability
Fy *= 1e-3 / force_mag;
Fz *= 1e-3 / force_mag;
}
if (rank == 0)
printf(" -- adjust force by factor %.5g \n ",
capillary_number / Ca);
Averages->SetParams(rhoA, rhoB, tauA, tauB, Fx, Fy, Fz,
alpha, beta, GreyPorosity);
greyscaleColor_db->putVector<double>("F", {Fx, Fy, Fz});
}
if (isSteady) {
MORPH_ADAPT = true;
CURRENT_MORPH_TIMESTEPS = 0;
delta_volume_target =
Dm->Volume * volA *
morph_delta; // set target volume change
//****** ENDPOINT ADAPTATION ********/
double krA_TMP = fabs(muA * flow_rate_A / force_mag);
double krB_TMP = fabs(muB * flow_rate_B / force_mag);
log_krA = log(krA_TMP);
if (krA_TMP < 0.0) {
// cannot do endpoint adaptation if kr is negative
log_krA = log_krA_prev;
} else if (krA_TMP < krB_TMP && morph_delta > 0.0) {
/** morphological target based on relative permeability for A **/
log_krA_target = log(KRA_MORPH_FACTOR * (krA_TMP));
slope_krA_volume = (log_krA - log_krA_prev) /
(Dm->Volume * (volA - volA_prev));
delta_volume_target = min(
delta_volume_target,
Dm->Volume * (volA + (log_krA_target - log_krA) /
slope_krA_volume));
if (rank == 0) {
printf(" Enabling endpoint adaptation: krA = "
"%.5g, krB = %.5g \n",
krA_TMP, krB_TMP);
printf(" log(kr)=%.5g, volume=%.5g, TARGET "
"log(kr)=%.5g, volume change=%.5g \n",
log_krA, volA, log_krA_target,
delta_volume_target / (volA * Dm->Volume));
}
}
log_krA_prev = log_krA;
volA_prev = volA;
//******************************** **/
/** compute averages & write data **/
/*Averages->Full();
Averages->Write(timestep);
analysis.WriteVisData(timestep, current_db, *Averages, Phi, Pressure, Velocity, fq, Den );
analysis.finish();
*/
if (rank == 0) {
printf("** WRITE STEADY POINT *** ");
printf("Ca = %.5g, (previous = %.5g) \n", Ca,
Ca_previous);
double h = Dm->voxel_length;
// pressures
double pA = Averages->Oil.p;
double pB = Averages->Water.p;
double pAB = (pA - pB) / (h * 6.0 * alpha);
double kAeff =
h * h * muA * (flow_rate_A) / (force_mag);
double kBeff =
h * h * muB * (flow_rate_B) / (force_mag);
double viscous_pressure_drop =
(rhoA * volA + rhoB * volB) * force_mag;
double Mobility = muA / muB;
bool WriteHeader = false;
FILE *kr_log_file = fopen("relperm.csv", "r");
if (kr_log_file != NULL)
fclose(kr_log_file);
else
WriteHeader = true;
kr_log_file = fopen("relperm.csv", "a");
if (WriteHeader)
fprintf(kr_log_file,
"timesteps sat.water eff.perm.oil "
"eff.perm.water cap.pressure.norm "
"pressure.drop Ca M\n");
fprintf(kr_log_file,
"%i %.5g %.5g %.5g %.5g %.5g %.5g %.5g\n",
CURRENT_STEADY_TIMESTEPS, current_saturation,
kAeff, kBeff, pAB, viscous_pressure_drop, Ca,
Mobility);
fclose(kr_log_file);
printf(" Measured capillary number %.5g \n ", Ca);
}
if (SET_CAPILLARY_NUMBER) {
Fx *= capillary_number / Ca;
Fy *= capillary_number / Ca;
Fz *= capillary_number / Ca;
if (force_mag > 1e-3) {
Fx *= 1e-3 /
force_mag; // impose ceiling for stability
Fy *= 1e-3 / force_mag;
Fz *= 1e-3 / force_mag;
}
if (rank == 0)
printf(" -- adjust force by factor %.5g \n ",
capillary_number / Ca);
Averages->SetParams(rhoA, rhoB, tauA, tauB, Fx, Fy, Fz,
alpha, beta, GreyPorosity);
greyscaleColor_db->putVector<double>("F", {Fx, Fy, Fz});
}
CURRENT_STEADY_TIMESTEPS = 0;
} else {
if (rank == 0) {
printf("** Continue to simulate steady *** \n ");
printf("Ca = %.5g, (previous = %.5g) \n", Ca,
Ca_previous);
}
}
morph_timesteps = 0;
Ca_previous = Ca;
}
if (MORPH_ADAPT) {
CURRENT_MORPH_TIMESTEPS += analysis_interval;
if (USE_SEED) {
delta_volume = volA * Dm->Volume - initial_volume;
CURRENT_MORPH_TIMESTEPS += analysis_interval;
double massChange = SeedPhaseField(seed_water);
if (rank == 0)
printf("***Seed water in oil %.5g, volume change %.5g "
"/ %.5g ***\n",
massChange, delta_volume, delta_volume_target);
}
if ((delta_volume - delta_volume_target) / delta_volume_target >
0.0) {
MORPH_ADAPT = false;
CURRENT_STEADY_TIMESTEPS = 0;
initial_volume = volA * Dm->Volume;
delta_volume = 0.0;
if (RESCALE_FORCE_AFTER_TIMESTEP > 0)
RESCALE_FORCE = true;
} else if (!(USE_DIRECT) &&
CURRENT_MORPH_TIMESTEPS > MAX_MORPH_TIMESTEPS) {
MORPH_ADAPT = false;
CURRENT_STEADY_TIMESTEPS = 0;
initial_volume = volA * Dm->Volume;
delta_volume = 0.0;
RESCALE_FORCE = true;
if (RESCALE_FORCE_AFTER_TIMESTEP > 0)
RESCALE_FORCE = true;
}
}
morph_timesteps += analysis_interval;
}
ScaLBL_Comm->Barrier();
}
//analysis.finish();
PROFILE_STOP("Loop");
PROFILE_SAVE("lbpm_color_simulator", 1);
//************************************************************************
ScaLBL_Comm->Barrier();
if (rank == 0)
printf("---------------------------------------------------------------"
"----\n");
// Compute the walltime per timestep
auto t2 = std::chrono::system_clock::now();
double cputime = std::chrono::duration<double>(t2 - t1).count() / timestep;
// Performance obtained from each node
double MLUPS = double(Np) / cputime / 1000000;
if (rank == 0)
printf("********************************************************\n");
if (rank == 0)
printf("CPU time = %f \n", cputime);
if (rank == 0)
printf("Lattice update rate (per core)= %f MLUPS \n", MLUPS);
MLUPS *= nprocs;
if (rank == 0)
printf("Lattice update rate (total)= %f MLUPS \n", MLUPS);
if (rank == 0)
printf("********************************************************\n");
// ************************************************************************
}
double
ScaLBL_GreyscaleColorModel::SeedPhaseField(const double seed_water_in_oil) {
srand(time(NULL));
double mass_loss = 0.f;
double count = 0.f;
double *Aq_tmp, *Bq_tmp;
Aq_tmp = new double[7 * Np];
Bq_tmp = new double[7 * Np];
ScaLBL_CopyToHost(Aq_tmp, Aq, 7 * Np * sizeof(double));
ScaLBL_CopyToHost(Bq_tmp, Bq, 7 * Np * sizeof(double));
for (int n = 0; n < ScaLBL_Comm->LastExterior(); n++) {
double random_value = seed_water_in_oil * double(rand()) / RAND_MAX;
double dA = Aq_tmp[n] + Aq_tmp[n + Np] + Aq_tmp[n + 2 * Np] +
Aq_tmp[n + 3 * Np] + Aq_tmp[n + 4 * Np] +
Aq_tmp[n + 5 * Np] + Aq_tmp[n + 6 * Np];
double dB = Bq_tmp[n] + Bq_tmp[n + Np] + Bq_tmp[n + 2 * Np] +
Bq_tmp[n + 3 * Np] + Bq_tmp[n + 4 * Np] +
Bq_tmp[n + 5 * Np] + Bq_tmp[n + 6 * Np];
double phase_id = (dA - dB) / (dA + dB);
if (phase_id > 0.0) {
Aq_tmp[n] -= 0.3333333333333333 * random_value;
Aq_tmp[n + Np] -= 0.1111111111111111 * random_value;
Aq_tmp[n + 2 * Np] -= 0.1111111111111111 * random_value;
Aq_tmp[n + 3 * Np] -= 0.1111111111111111 * random_value;
Aq_tmp[n + 4 * Np] -= 0.1111111111111111 * random_value;
Aq_tmp[n + 5 * Np] -= 0.1111111111111111 * random_value;
Aq_tmp[n + 6 * Np] -= 0.1111111111111111 * random_value;
Bq_tmp[n] += 0.3333333333333333 * random_value;
Bq_tmp[n + Np] += 0.1111111111111111 * random_value;
Bq_tmp[n + 2 * Np] += 0.1111111111111111 * random_value;
Bq_tmp[n + 3 * Np] += 0.1111111111111111 * random_value;
Bq_tmp[n + 4 * Np] += 0.1111111111111111 * random_value;
Bq_tmp[n + 5 * Np] += 0.1111111111111111 * random_value;
Bq_tmp[n + 6 * Np] += 0.1111111111111111 * random_value;
}
mass_loss += random_value * seed_water_in_oil;
}
for (int n = ScaLBL_Comm->FirstInterior(); n < ScaLBL_Comm->LastInterior();
n++) {
double random_value = seed_water_in_oil * double(rand()) / RAND_MAX;
double dA = Aq_tmp[n] + Aq_tmp[n + Np] + Aq_tmp[n + 2 * Np] +
Aq_tmp[n + 3 * Np] + Aq_tmp[n + 4 * Np] +
Aq_tmp[n + 5 * Np] + Aq_tmp[n + 6 * Np];
double dB = Bq_tmp[n] + Bq_tmp[n + Np] + Bq_tmp[n + 2 * Np] +
Bq_tmp[n + 3 * Np] + Bq_tmp[n + 4 * Np] +
Bq_tmp[n + 5 * Np] + Bq_tmp[n + 6 * Np];
double phase_id = (dA - dB) / (dA + dB);
if (phase_id > 0.0) {
Aq_tmp[n] -= 0.3333333333333333 * random_value;
Aq_tmp[n + Np] -= 0.1111111111111111 * random_value;
Aq_tmp[n + 2 * Np] -= 0.1111111111111111 * random_value;
Aq_tmp[n + 3 * Np] -= 0.1111111111111111 * random_value;
Aq_tmp[n + 4 * Np] -= 0.1111111111111111 * random_value;
Aq_tmp[n + 5 * Np] -= 0.1111111111111111 * random_value;
Aq_tmp[n + 6 * Np] -= 0.1111111111111111 * random_value;
Bq_tmp[n] += 0.3333333333333333 * random_value;
Bq_tmp[n + Np] += 0.1111111111111111 * random_value;
Bq_tmp[n + 2 * Np] += 0.1111111111111111 * random_value;
Bq_tmp[n + 3 * Np] += 0.1111111111111111 * random_value;
Bq_tmp[n + 4 * Np] += 0.1111111111111111 * random_value;
Bq_tmp[n + 5 * Np] += 0.1111111111111111 * random_value;
Bq_tmp[n + 6 * Np] += 0.1111111111111111 * random_value;
}
mass_loss += random_value * seed_water_in_oil;
}
count = Dm->Comm.sumReduce(count);
mass_loss = Dm->Comm.sumReduce(mass_loss);
if (rank == 0)
printf("Remove mass %.5g from %.5g voxels \n", mass_loss, count);
// Need to initialize Aq, Bq, Den, Phi directly
//ScaLBL_CopyToDevice(Phi,phase.data(),7*Np*sizeof(double));
ScaLBL_CopyToDevice(Aq, Aq_tmp, 7 * Np * sizeof(double));
ScaLBL_CopyToDevice(Bq, Bq_tmp, 7 * Np * sizeof(double));
return (mass_loss);
}
//TODO for temporary use - writing visualization files should be included in the analysis framework in the future
void ScaLBL_GreyscaleColorModel::WriteVisFiles() {
//NOTE: write_silo is always true
std::vector<IO::MeshDataStruct> visData;
fillHalo<double> fillData(Dm->Comm, Dm->rank_info,
{Dm->Nx - 2, Dm->Ny - 2, Dm->Nz - 2}, {1, 1, 1},
0, 1);
auto VxVar = std::make_shared<IO::Variable>();
auto VyVar = std::make_shared<IO::Variable>();
auto VzVar = std::make_shared<IO::Variable>();
auto SignDistVar = std::make_shared<IO::Variable>();
auto PressureVar = std::make_shared<IO::Variable>();
auto PhaseVar = std::make_shared<IO::Variable>();
// Create the MeshDataStruct
IO::initialize("", "silo", "false");
visData.resize(1);
visData[0].meshName = "domain";
visData[0].mesh =
std::make_shared<IO::DomainMesh>(Dm->rank_info, Dm->Nx - 2, Dm->Ny - 2,
Dm->Nz - 2, Dm->Lx, Dm->Ly, Dm->Lz);
// create a temp data for copy from device
DoubleArray DataTemp(Nx, Ny, Nz);
if (vis_db->getWithDefault<bool>("save_phase_field", true)) {
PhaseVar->name = "Phase";
PhaseVar->type = IO::VariableType::VolumeVariable;
PhaseVar->dim = 1;
PhaseVar->data.resize(Dm->Nx - 2, Dm->Ny - 2, Dm->Nz - 2);
visData[0].vars.push_back(PhaseVar);
ASSERT(visData[0].vars[0]->name == "Phase");
Array<double> &PhaseData = visData[0].vars[0]->data;
ScaLBL_CopyToHost(DataTemp.data(), Phi, sizeof(double) * Nx * Ny * Nz);
fillData.copy(DataTemp, PhaseData);
}
if (vis_db->getWithDefault<bool>("save_pressure", false)) {
PressureVar->name = "Pressure";
PressureVar->type = IO::VariableType::VolumeVariable;
PressureVar->dim = 1;
PressureVar->data.resize(Dm->Nx - 2, Dm->Ny - 2, Dm->Nz - 2);
visData[0].vars.push_back(PressureVar);
ASSERT(visData[0].vars[1]->name == "Pressure");
Array<double> &PressData = visData[0].vars[1]->data;
ScaLBL_Comm->RegularLayout(Map, Pressure, DataTemp);
fillData.copy(DataTemp, PressData);
}
if (vis_db->getWithDefault<bool>("save_velocity", false)) {
VxVar->name = "Velocity_x";
VxVar->type = IO::VariableType::VolumeVariable;
VxVar->dim = 1;
VxVar->data.resize(Dm->Nx - 2, Dm->Ny - 2, Dm->Nz - 2);
visData[0].vars.push_back(VxVar);
VyVar->name = "Velocity_y";
VyVar->type = IO::VariableType::VolumeVariable;
VyVar->dim = 1;
VyVar->data.resize(Dm->Nx - 2, Dm->Ny - 2, Dm->Nz - 2);
visData[0].vars.push_back(VyVar);
VzVar->name = "Velocity_z";
VzVar->type = IO::VariableType::VolumeVariable;
VzVar->dim = 1;
VzVar->data.resize(Dm->Nx - 2, Dm->Ny - 2, Dm->Nz - 2);
visData[0].vars.push_back(VzVar);
ASSERT(visData[0].vars[2]->name == "Velocity_x");
ASSERT(visData[0].vars[3]->name == "Velocity_y");
ASSERT(visData[0].vars[4]->name == "Velocity_z");
Array<double> &VelxData = visData[0].vars[2]->data;
Array<double> &VelyData = visData[0].vars[3]->data;
Array<double> &VelzData = visData[0].vars[4]->data;
ScaLBL_Comm->RegularLayout(Map, &Velocity[0], DataTemp);
fillData.copy(DataTemp, VelxData);
ScaLBL_Comm->RegularLayout(Map, &Velocity[Np], DataTemp);
fillData.copy(DataTemp, VelyData);
ScaLBL_Comm->RegularLayout(Map, &Velocity[2 * Np], DataTemp);
fillData.copy(DataTemp, VelzData);
}
if (vis_db->getWithDefault<bool>("save_distance", false)) {
SignDistVar->name = "SignDist";
SignDistVar->type = IO::VariableType::VolumeVariable;
SignDistVar->dim = 1;
SignDistVar->data.resize(Dm->Nx - 2, Dm->Ny - 2, Dm->Nz - 2);
visData[0].vars.push_back(SignDistVar);
ASSERT(visData[0].vars[5]->name == "SignDist");
Array<double> &SignData = visData[0].vars[5]->data;
fillData.copy(Averages->SDs, SignData);
}
if (vis_db->getWithDefault<bool>("write_silo", true)) {
IO::writeData(timestep, visData, Dm->Comm);
}
if (vis_db->getWithDefault<bool>("save_8bit_raw", true)) {
//TODO
//char CurrentIDFilename[40];
//sprintf(CurrentIDFilename,"id_t%d.raw",timestep);
//Averages.AggregateLabels(CurrentIDFilename);
}
}
void ScaLBL_GreyscaleColorModel::WriteDebug() {
// Copy back final phase indicator field and convert to regular layout
DoubleArray PhaseField(Nx, Ny, Nz);
//ScaLBL_Comm->RegularLayout(Map,Phi,PhaseField);
ScaLBL_CopyToHost(PhaseField.data(), Phi, sizeof(double) * N);
FILE *OUTFILE;
sprintf(LocalRankFilename, "Phase.%05i.raw", rank);
OUTFILE = fopen(LocalRankFilename, "wb");
fwrite(PhaseField.data(), 8, N, OUTFILE);
fclose(OUTFILE);
//ScaLBL_CopyToHost(PhaseField.data(), Psi, sizeof(double)*N);
//FILE *PSIFILE;
//sprintf(LocalRankFilename,"Psi.%05i.raw",rank);
//PSIFILE = fopen(LocalRankFilename,"wb");
//fwrite(PhaseField.data(),8,N,PSIFILE);
//fclose(PSIFILE);
ScaLBL_Comm->RegularLayout(Map, &Den[0], PhaseField);
FILE *AFILE;
sprintf(LocalRankFilename, "A.%05i.raw", rank);
AFILE = fopen(LocalRankFilename, "wb");
fwrite(PhaseField.data(), 8, N, AFILE);
fclose(AFILE);
ScaLBL_Comm->RegularLayout(Map, &Den[Np], PhaseField);
FILE *BFILE;
sprintf(LocalRankFilename, "B.%05i.raw", rank);
BFILE = fopen(LocalRankFilename, "wb");
fwrite(PhaseField.data(), 8, N, BFILE);
fclose(BFILE);
ScaLBL_Comm->RegularLayout(Map, Pressure, PhaseField);
FILE *PFILE;
sprintf(LocalRankFilename, "Pressure.%05i.raw", rank);
PFILE = fopen(LocalRankFilename, "wb");
fwrite(PhaseField.data(), 8, N, PFILE);
fclose(PFILE);
ScaLBL_Comm->RegularLayout(Map, &Velocity[0], PhaseField);
FILE *VELX_FILE;
sprintf(LocalRankFilename, "Velocity_X.%05i.raw", rank);
VELX_FILE = fopen(LocalRankFilename, "wb");
fwrite(PhaseField.data(), 8, N, VELX_FILE);
fclose(VELX_FILE);
ScaLBL_Comm->RegularLayout(Map, &Velocity[Np], PhaseField);
FILE *VELY_FILE;
sprintf(LocalRankFilename, "Velocity_Y.%05i.raw", rank);
VELY_FILE = fopen(LocalRankFilename, "wb");
fwrite(PhaseField.data(), 8, N, VELY_FILE);
fclose(VELY_FILE);
ScaLBL_Comm->RegularLayout(Map, &Velocity[2 * Np], PhaseField);
FILE *VELZ_FILE;
sprintf(LocalRankFilename, "Velocity_Z.%05i.raw", rank);
VELZ_FILE = fopen(LocalRankFilename, "wb");
fwrite(PhaseField.data(), 8, N, VELZ_FILE);
fclose(VELZ_FILE);
ScaLBL_Comm->RegularLayout(Map, &Porosity_dvc[0], PhaseField);
FILE *POROS_FILE;
sprintf(LocalRankFilename, "Porosity.%05i.raw", rank);
POROS_FILE = fopen(LocalRankFilename, "wb");
fwrite(PhaseField.data(), 8, N, POROS_FILE);
fclose(POROS_FILE);
ScaLBL_Comm->RegularLayout(Map, &Permeability_dvc[0], PhaseField);
FILE *PERM_FILE;
sprintf(LocalRankFilename, "Permeability.%05i.raw", rank);
PERM_FILE = fopen(LocalRankFilename, "wb");
fwrite(PhaseField.data(), 8, N, PERM_FILE);
fclose(PERM_FILE);
//ScaLBL_Comm->RegularLayout(Map,&GreySolidGrad[0],PhaseField);
//FILE *GreySG_X_FILE;
//sprintf(LocalRankFilename,"GreySolidGrad_X.%05i.raw",rank);
//GreySG_X_FILE = fopen(LocalRankFilename,"wb");
//fwrite(PhaseField.data(),8,N,GreySG_X_FILE);
//fclose(GreySG_X_FILE);
//ScaLBL_Comm->RegularLayout(Map,&GreySolidGrad[Np],PhaseField);
//FILE *GreySG_Y_FILE;
//sprintf(LocalRankFilename,"GreySolidGrad_Y.%05i.raw",rank);
//GreySG_Y_FILE = fopen(LocalRankFilename,"wb");
//fwrite(PhaseField.data(),8,N,GreySG_Y_FILE);
//fclose(GreySG_Y_FILE);
//ScaLBL_Comm->RegularLayout(Map,&GreySolidGrad[2*Np],PhaseField);
//FILE *GreySG_Z_FILE;
//sprintf(LocalRankFilename,"GreySolidGrad_Z.%05i.raw",rank);
//GreySG_Z_FILE = fopen(LocalRankFilename,"wb");
//fwrite(PhaseField.data(),8,N,GreySG_Z_FILE);
//fclose(GreySG_Z_FILE);
/* ScaLBL_Comm->RegularLayout(Map,&ColorGrad[0],PhaseField);
FILE *CGX_FILE;
sprintf(LocalRankFilename,"Gradient_X.%05i.raw",rank);
CGX_FILE = fopen(LocalRankFilename,"wb");
fwrite(PhaseField.data(),8,N,CGX_FILE);
fclose(CGX_FILE);
ScaLBL_Comm->RegularLayout(Map,&ColorGrad[Np],PhaseField);
FILE *CGY_FILE;
sprintf(LocalRankFilename,"Gradient_Y.%05i.raw",rank);
CGY_FILE = fopen(LocalRankFilename,"wb");
fwrite(PhaseField.data(),8,N,CGY_FILE);
fclose(CGY_FILE);
ScaLBL_Comm->RegularLayout(Map,&ColorGrad[2*Np],PhaseField);
FILE *CGZ_FILE;
sprintf(LocalRankFilename,"Gradient_Z.%05i.raw",rank);
CGZ_FILE = fopen(LocalRankFilename,"wb");
fwrite(PhaseField.data(),8,N,CGZ_FILE);
fclose(CGZ_FILE);
*/
}
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