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clamr_mpionly.cpp
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clamr_mpionly.cpp
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/*
* Copyright (c) 2011-2019, Triad National Security, LLC.
* All rights Reserved.
*
* CLAMR -- LA-CC-11-094
*
* Copyright 2011-2019. Triad National Security, LLC. This software was produced
* under U.S. Government contract 89233218CNA000001 for Los Alamos National
* Laboratory (LANL), which is operated by Triad National Security, LLC
* for the U.S. Department of Energy. The U.S. Government has rights to use,
* reproduce, and distribute this software. NEITHER THE GOVERNMENT NOR
* TRIAD NATIONAL SECURITY, LLC MAKES ANY WARRANTY, EXPRESS OR IMPLIED, OR
* ASSUMES ANY LIABILITY FOR THE USE OF THIS SOFTWARE. If software is modified
* to produce derivative works, such modified software should be clearly marked,
* so as not to confuse it with the version available from LANL.
*
* Additionally, redistribution and use in source and binary forms, with or without
* modification, are permitted provided that the following conditions are met:
* * Redistributions of source code must retain the above copyright
* notice, this list of conditions and the following disclaimer.
* * Redistributions in binary form must reproduce the above copyright
* notice, this list of conditions and the following disclaimer in the
* documentation and/or other materials provided with the distribution.
* * Neither the name of the Triad National Security, LLC, Los Alamos
* National Laboratory, LANL, the U.S. Government, nor the names of its
* contributors may be used to endorse or promote products derived from
* this software without specific prior written permission.
*
* THIS SOFTWARE IS PROVIDED BY THE TRIAD NATIONAL SECURITY, LLC AND
* CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT
* NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR
* A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL TRIAD NATIONAL
* SECURITY, LLC OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL,
* SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO,
* PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS;
* OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY,
* WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE)
* ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE
* POSSIBILITY OF SUCH DAMAGE.
*
* CLAMR -- LA-CC-11-094
* This research code is being developed as part of the
* 2011 X Division Summer Workshop for the express purpose
* of a collaborative code for development of ideas in
* the implementation of AMR codes for Exascale platforms
*
* AMR implementation of the Wave code previously developed
* as a demonstration code for regular grids on Exascale platforms
* as part of the Supercomputing Challenge and Los Alamos
* National Laboratory
*
* Authors: Bob Robey XCP-2 [email protected]
* Neal Davis [email protected], [email protected]
* David Nicholaeff [email protected], [email protected]
* Dennis Trujillo [email protected], [email protected]
*
*/
#include <algorithm>
#include <math.h>
#include <stdio.h>
#include <stdlib.h>
#include <sys/time.h>
#include <unistd.h>
#include <vector>
#include "graphics/display.h"
#include "graphics/graphics.h"
#include "input.h"
#include "mesh/mesh.h"
#include "mesh/partition.h"
#include "state.h"
#include "l7/l7.h"
#include "timer/timer.h"
#include "memstats/memstats.h"
#include "crux/crux.h"
#include "PowerParser/PowerParser.hh"
#include "MallocPlus/MallocPlus.h"
using namespace PP;
#ifdef _OPENMP
#include <omp.h>
#endif
#ifndef DEBUG
#define DEBUG 0
#endif
#undef DEBUG_RESTORE_VALS
//#define DEBUG_RESTORE_VALS 1
#define MIN3(x,y,z) ( min( min(x,y), z) )
static int do_cpu_calc = 1;
static int do_gpu_calc = 0;
extern int choose_amr_method;
typedef unsigned int uint;
static bool do_display_graphics = false;
static bool do_display_opengl_graphics = false;
#ifdef HAVE_GRAPHICS
static double circle_radius=-1.0;
#ifdef FULL_PRECISION
void (*set_display_cell_coordinates)(double *, double *, double *, double *) = &set_display_cell_coordinates_double;
void (*set_display_cell_data)(double *) = &set_display_cell_data_double;
#else
void (*set_display_cell_coordinates)(float *, float *, float *, float *) = &set_display_cell_coordinates_float;
void (*set_display_cell_data)(float *) = &set_display_cell_data_float;
#endif
#endif
static int view_mode = 0;
#if defined(FULL_PRECISION)
#define SUM_ERROR 2.2e-16
void (*set_graphics_cell_coordinates)(double *, double *, double *, double *) = &set_graphics_cell_coordinates_double;
void (*set_graphics_cell_data)(double *) = &set_graphics_cell_data_double;
#elif defined(MINIMUM_PRECISION) || defined(MIXED_PRECISION)
#define SUM_ERROR 1.0e-7
void (*set_graphics_cell_coordinates)(float *, float *, float *, float *) = &set_graphics_cell_coordinates_float;
void (*set_graphics_cell_data)(float *) = &set_graphics_cell_data_float;
#elif defined(HALF_PRECISION)
#define SUM_ERROR 1.0e-6
void (*set_graphics_cell_coordinates)(float *, float *, float *, float *) = &set_graphics_cell_coordinates_float;
void (*set_graphics_cell_data)(float *) = &set_graphics_cell_data_float;
#endif
void store_crux_data(Crux *crux, int ncycle);
void restore_crux_data_bootstrap(Crux *crux, char *restart_file, int rollback_counter);
void restore_crux_data(Crux *crux);
bool restart, // Flag to start from a back up file; init in input.cpp::parseInput().
verbose, // Flag for verbose command-line output; init in input.cpp::parseInput().
localStencil, // Flag for use of local stencil; init in input.cpp::parseInput().
face_based, // Flag for face-based finite difference;
outline; // Flag for drawing outlines of cells; init in input.cpp::parseInput().
int outputInterval, // Periodicity of output; init in input.cpp::parseInput().
crux_type, // Type of checkpoint/restart -- CRUX_NONE, CRUX_IN_MEMORY, CRUX_DISK;
// init in input.cpp::parseInput().
enhanced_precision_sum,// Flag for enhanced precision sum (default true); init in input.cpp::parseInput().
lttrace_on, // Flag to turn on logical time trace package;
do_quo_setup, // Flag to turn on quo dynamic scheduling policies package;
levmx, // Maximum number of refinement levels; init in input.cpp::parseInput().
nx, // x-resolution of coarse grid; init in input.cpp::parseInput().
ny, // y-resolution of coarse grid; init in input.cpp::parseInput().
niter, // Maximum iterations; init in input.cpp::parseInput().
graphic_outputInterval, // Periodicity of graphic output that is saved; init in input.cpp::parseInput()
checkpoint_outputInterval, // Periodicity of checkpoint output that is saved; init in input.cpp::parseInput()
num_of_rollback_states,// Maximum number of rollback states to maintain; init in input.cpp::parseInput()
output_cuts, // Flag for outputting file of slice along y-axis; init in input.cpp::parseInput().
backup_file_num,// Backup file number to restart simulation from; init in input.cpp::parseInput()
numpe, //
ndim = 2, // Dimensionality of problem (2 or 3).
ndigits,
nbits;
double upper_mass_diff_percentage; // Flag for the allowed pecentage difference to the total
// mass per output intervals; init in input.cpp::parseInput().
char *restart_file;
static int it = 0;
enum partition_method initial_order, // Initial order of mesh.
cycle_reorder; // Order of mesh every cycle.
static Mesh *mesh; // Object containing mesh information
static State *state; // Object containing state information corresponding to mesh
static Crux *crux; // Object containing checkpoint/restart information
static PowerParser *parse; // Object containing input file parsing
static real_t circ_radius = 0.0;
static int next_cp_cycle = 0;
static int next_graphics_cycle = 0;
// Set up timing information.
static struct timespec tstart, tstart_cpu, tstart_partmeas;
static double H_sum_initial = 0.0;
static double cpu_time_graphics = 0.0;
static double cpu_time_calcs = 0.0;
static double cpu_time_partmeas = 0.0;
static int ncycle = 0;
static double simTime = 0.0;
static double deltaT = 0.0;
char total_sim_time_log[] = {"total_execution_time.log"};
struct timespec total_exec;
vector<state_t> H_global;
vector<spatial_t> x_global;
vector<spatial_t> dx_global;
vector<spatial_t> y_global;
vector<spatial_t> dy_global;
vector<int> proc_global;
int main(int argc, char **argv) {
// Needed for code to compile correctly on the Mac
int mype=0;
int numpe=0;
// Process command-line arguments, if any.
parseInput(argc, argv);
L7_Init(&mype, &numpe, &argc, argv, do_quo_setup, lttrace_on);
#ifdef _OPENMP
int nt = 0;
int tid = 0;
nt = omp_get_max_threads();
tid = omp_get_thread_num();
if (0 == tid && mype == 0) {
printf("--- max num openmp threads: %d\n", nt);
}
#pragma omp parallel firstprivate(nt, tid)
{
nt = omp_get_num_threads();
tid = omp_get_thread_num();
#pragma omp master
if (mype == 0) {
printf("--- num openmp threads in parallel region: %d\n", nt);
}
}
#endif
parse = new PowerParser();
struct timespec tstart_setup;
cpu_timer_start(&tstart_setup);
crux = new Crux(crux_type, num_of_rollback_states, restart);
circ_radius = 6.0;
// Scale the circle appropriately for the mesh size.
circ_radius = circ_radius * (real_t) nx / 128.0;
int boundary = 1;
int parallel_in = 1;
double deltax_in = 1.0;
double deltay_in = 1.0;
if (restart){
restore_crux_data_bootstrap(crux, restart_file, 0);
mesh = new Mesh(nx, ny, levmx, ndim, deltax_in, deltay_in, boundary, parallel_in, do_gpu_calc);
//mesh->init(nx, ny, circ_radius, initial_order, do_gpu_calc);
state = new State(mesh);
restore_crux_data(crux);
// mesh->proc.resize(mesh->ncells);
// mesh->calc_distribution(numpe);
mesh->init(nx, ny, circ_radius, initial_order, do_gpu_calc);
mesh->calc_celltype(mesh->ncells);
double H_sum = state->mass_sum(enhanced_precision_sum);
//if (mype == 0) printf ("Mass of initialized cells equal to %14.12lg\n", H_sum);
double percent_mass_diff = fabs(H_sum - H_sum_initial)/H_sum_initial * 100.0;
if (percent_mass_diff >= upper_mass_diff_percentage) {
printf("Mass difference outside of acceptable range on restart at cycle %d percent_mass_diff %lg upper limit %lg\n",ncycle,percent_mass_diff, upper_mass_diff_percentage);
L7_Terminate();
exit(0);
}
} else {
mesh = new Mesh(nx, ny, levmx, ndim, deltax_in, deltay_in, boundary, parallel_in, do_gpu_calc);
if (DEBUG) {
//if (mype == 0) mesh->print();
char filename[10];
sprintf(filename,"out%1d",mype);
mesh->fp=fopen(filename,"w");
//mesh->print_local();
}
mesh->init(nx, ny, circ_radius, initial_order, do_gpu_calc);
state = new State(mesh);
state->init(do_gpu_calc);
state->fill_circle(circ_radius, 80.0, 10.0);
}
size_t &ncells = mesh->ncells;
size_t &ncells_global = mesh->ncells_global;
//int &noffset = mesh->noffset;
vector<int> &nsizes = mesh->nsizes;
vector<int> &ndispl = mesh->ndispl;
vector<spatial_t> &x = mesh->x;
vector<spatial_t> &dx = mesh->dx;
vector<spatial_t> &y = mesh->y;
vector<spatial_t> &dy = mesh->dy;
if (graphic_outputInterval > niter) next_graphics_cycle = graphic_outputInterval;
if (checkpoint_outputInterval > niter) next_cp_cycle = checkpoint_outputInterval;
// Kahan-type enhanced precision sum implementation.
mesh->calc_celltype(ncells);
double H_sum = state->mass_sum(enhanced_precision_sum);
if (mype == 0) printf ("Mass of initialized cells equal to %14.12lg\n", H_sum);
H_sum_initial = H_sum;
if(upper_mass_diff_percentage < 0){
upper_mass_diff_percentage = H_sum_initial * SUM_ERROR;
//printf("Setting sum mass error to %16.8lg\n",upper_mass_diff_percentage);
}
double cpu_time_main_setup = cpu_timer_stop(tstart_setup);
mesh->parallel_output("CPU: setup time time was",cpu_time_main_setup, 0, "s");
long long mem_used = memstats_memused();
if (mem_used > 0) {
mesh->parallel_output("Memory used in startup ",mem_used, 0, "kB");
mesh->parallel_output("Memory peak in startup ",memstats_mempeak(), 0, "kB");
mesh->parallel_output("Memory free at startup ",memstats_memfree(), 0, "kB");
mesh->parallel_output("Memory available at startup ",memstats_memtotal(), 0, "kB");
}
if (mype == 0) {
if (ncycle != 0){
printf("Iteration %3d timestep %lf Sim Time %lf cells %ld Mass Sum %14.12lg\n",
ncycle, deltaT, simTime, ncells_global, H_sum);
} else {
printf("Iteration 0 timestep n/a Sim Time 0.0 cells %ld Mass Sum %14.12lg\n", ncells_global, H_sum);
}
}
for (int i = 0; i < MESH_COUNTER_SIZE; i++){
mesh->cpu_counters[i]=0;
}
for (int i = 0; i < MESH_TIMER_SIZE; i++){
mesh->cpu_timers[i]=0.0;
}
cpu_timer_start(&tstart_cpu);
#ifdef HAVE_GRAPHICS
do_display_graphics = true;
#ifdef HAVE_OPENGL
do_display_opengl_graphics = true;
#endif
#endif
if (do_display_graphics || ncycle == next_graphics_cycle){
mesh->calc_spatial_coordinates(0);
}
if (do_display_opengl_graphics || ncycle == next_graphics_cycle){
if (mype == 0){
H_global.clear();
x_global.clear();
dx_global.clear();
y_global.clear();
dy_global.clear();
proc_global.clear();
H_global.resize(ncells_global);
x_global.resize(ncells_global);
dx_global.resize(ncells_global);
y_global.resize(ncells_global);
dy_global.resize(ncells_global);
proc_global.resize(ncells_global);
}
MPI_Gatherv(&x[0], nsizes[mype], MPI_SPATIAL_T, &x_global[0], &nsizes[0], &ndispl[0], MPI_SPATIAL_T, 0, MPI_COMM_WORLD);
MPI_Gatherv(&dx[0], nsizes[mype], MPI_SPATIAL_T, &dx_global[0], &nsizes[0], &ndispl[0], MPI_SPATIAL_T, 0, MPI_COMM_WORLD);
MPI_Gatherv(&y[0], nsizes[mype], MPI_SPATIAL_T, &y_global[0], &nsizes[0], &ndispl[0], MPI_SPATIAL_T, 0, MPI_COMM_WORLD);
MPI_Gatherv(&dy[0], nsizes[mype], MPI_SPATIAL_T, &dy_global[0], &nsizes[0], &ndispl[0], MPI_SPATIAL_T, 0, MPI_COMM_WORLD);
MPI_Gatherv(&state->H[0], nsizes[mype], MPI_STATE_T, &H_global[0], &nsizes[0], &ndispl[0], MPI_STATE_T, 0, MPI_COMM_WORLD);
if (view_mode == 0) {
mesh->proc.resize(ncells);
#ifdef _OPENMP_SIMD
#pragma omp simd
#endif
for (size_t ii = 0; ii<ncells; ii++){
mesh->proc[ii] = mesh->mype;
}
MPI_Gatherv(&mesh->proc[0], nsizes[mype], MPI_INT, &proc_global[0], &nsizes[0], &ndispl[0], MPI_INT, 0, MPI_COMM_WORLD);
}
}
#ifdef HAVE_GRAPHICS
#ifdef HAVE_OPENGL
set_display_mysize(ncells_global);
set_display_cell_coordinates(&x_global[0], &dx_global[0], &y_global[0], &dy_global[0]);
set_display_cell_data(&H_global[0]);
set_display_cell_proc(&proc_global[0]);
#endif
#ifdef HAVE_MPE
set_display_mysize(ncells);
set_display_cell_coordinates(&mesh->x[0], &mesh->dx[0], &mesh->y[0], &mesh->dy[0]);
set_display_cell_data(&state->H[0]);
set_display_cell_proc(&mesh->proc[0]);
#endif
set_display_window((float)mesh->xmin, (float)mesh->xmax,
(float)mesh->ymin, (float)mesh->ymax);
set_display_outline((int)outline);
set_display_viewmode(view_mode);
#endif
if (ncycle == next_graphics_cycle){
set_graphics_outline(outline);
set_graphics_window((float)mesh->xmin, (float)mesh->xmax,
(float)mesh->ymin, (float)mesh->ymax);
set_graphics_mysize(ncells_global);
set_graphics_cell_coordinates(&x_global[0], &dx_global[0],
&y_global[0], &dy_global[0]);
#ifndef HALF_PRECISION
set_graphics_cell_data(&H_global[0]);
#endif
set_graphics_cell_proc(&proc_global[0]);
set_graphics_viewmode(view_mode);
if (mype == 0) {
init_graphics_output();
write_graphics_info(0,0,0.0,0,0);
}
next_graphics_cycle += graphic_outputInterval;
}
#ifdef HAVE_GRAPHICS
set_display_circle_radius(circle_radius);
init_display(&argc, argv, "Shallow Water");
draw_scene();
//if (verbose) sleep(5);
sleep(2);
// Clear superposition of circle on grid output.
circle_radius = -1.0;
#endif
cpu_time_graphics += cpu_timer_stop(tstart_cpu);
// Set flag to show mesh results rather than domain decomposition.
view_mode = 1;
if (ncycle == next_cp_cycle) store_crux_data(crux, ncycle);
#ifdef _OPENMP
#pragma omp parallel
{
#endif
mesh->calc_neighbors_local();
#ifdef _OPENMP
} // end parallel region
#endif
cpu_timer_start(&tstart);
#ifdef HAVE_GRAPHICS
set_idle_function(&do_calc);
start_main_loop();
#else
for (it = ncycle; it < 10000000; it++) {
do_calc();
}
#endif
return 0;
}
extern "C" void do_calc(void)
{ double g = 9.80;
double sigma = 0.95;
int icount, jcount;
static int rollback_attempt = 0;
static double total_program_time = 0;
// Initialize state variables for GPU calculation.
int &mype = mesh->mype;
//int levmx = mesh->levmx;
size_t &ncells_global = mesh->ncells_global;
size_t &ncells = mesh->ncells;
vector<char_t> mpot;
vector<char_t> mpot_global;
size_t new_ncells = 0;
// Main loop.
int endcycle = MIN3(niter, next_cp_cycle, next_graphics_cycle);
mesh->set_bounds(ncells);
cpu_timer_start(&tstart_cpu);
for (int nburst = ncycle % outputInterval; nburst < outputInterval && ncycle < endcycle; nburst++, ncycle++) {
mpot.resize(mesh->ncells_ghost);
new_ncells = state->calc_refine_potential(mpot, icount, jcount);
// Resize the mesh, inserting cells where refinement is necessary.
#ifdef _OPENMP
#pragma omp parallel
{
#endif
state->rezone_all(icount, jcount, mpot);
// Clear does not delete mpot, so have to swap with an empty vector to get
// it to delete the mpot memory. This is all to avoid valgrind from showing
// it as a reachable memory leak
#ifdef _OPENMP
#pragma omp master
{
#endif
//mpot.clear();
vector<char_t>().swap(mpot);
mesh->ncells = new_ncells;
ncells = new_ncells;
#ifdef _OPENMP
}
#pragma omp barrier
#endif
mesh->set_bounds(ncells);
state->do_load_balance_local(new_ncells);
//#ifdef _OPENMP
//#pragma omp master
// {
//#endif
//cpu_timer_start(&tstart_check);
// mesh->proc.resize(ncells);
// if (icount)
// { vector<int> index(ncells);
// mesh->partition_cells(numpe, index, cycle_reorder);
// state->state_reorder(index);
// state->memory_reset_ptrs();
// }
//cpu_time_check += cpu_timer_stop(tstart_check);
//#ifdef _OPENMP
// }
//#pragma omp barrier
//#endif
// Calculate the real time step for the current discrete time step.
double mydeltaT = state->set_timestep(g, sigma); // Private variable to avoid write conflict
#ifdef _OPENMP
#pragma omp barrier
#pragma omp master
{
#endif
deltaT = mydeltaT;
simTime += deltaT;
#ifdef _OPENMP
}
#endif
mesh->calc_neighbors_local();
cpu_timer_start(&tstart_partmeas);
mesh->partition_measure();
#ifdef _OPENMP
#pragma omp master
#endif
cpu_time_partmeas += cpu_timer_stop(tstart_partmeas);
// Currently not working -- may need to be earlier?
//if (mesh->have_boundary) {
// state->add_boundary_cells();
//}
// Apply BCs is currently done as first part of gpu_finite_difference and so comparison won't work here
mesh->set_bounds(ncells);
// Execute main kernel
if (choose_amr_method == CELL_AMR) {
state->calc_finite_difference(deltaT);
} else if (choose_amr_method == FACE_AMR) {
//printf("ERROR -- the face method currently does not work with MPI\n");
//L7_Terminate();
//exit(-1);
state->calc_finite_difference_via_faces(deltaT);
} else if (choose_amr_method == CELL_IN_PLACE_AMR) {
printf("ERROR -- the cell-in-place method currently does not work with MPI\n");
//L7_Terminate();
//exit(-1);
state->calc_finite_difference_cell_in_place(deltaT);
} else if (choose_amr_method == FACE_IN_PLACE_AMR) {
printf("ERROR -- the face-in-place method currently does not work with MPI\n");
L7_Terminate();
exit(-1);
//state->calc_finite_difference_face_in_place(deltaT);
} else if (choose_amr_method == REGULAR_GRID_AMR) {
printf("ERROR -- the regular grid AMR method currently does not work with MPI\n");
L7_Terminate();
exit(-1);
//state->calc_finite_difference_regular_cells(deltaT);
} else if (choose_amr_method == REGULAR_GRID_BY_FACES_AMR) {
printf("ERROR -- the regular grid by faces AMR method currently does not work with MPI\n");
L7_Terminate();
exit(-1);
//state->calc_finite_difference_regular_cells_by_faces(deltaT);
} else {
state->calc_finite_difference(deltaT);
}
// Size of arrays gets reduced to just the real cells in this call for have_boundary = 0
state->remove_boundary_cells();
#ifdef _OPENMP
} // end parallel region
#endif
} // End burst loop
cpu_time_calcs += cpu_timer_stop(tstart_cpu);
double H_sum = state->mass_sum(enhanced_precision_sum);
int error_status = STATUS_OK;
#ifdef __APPLE__
if (isnan(H_sum)) {
#else
if (std::isnan(H_sum)) {
#endif
printf("Got a NAN on cycle %d\n",ncycle);
error_status = STATUS_NAN;
}
double percent_mass_diff = fabs(H_sum - H_sum_initial)/H_sum_initial * 100.0;
if (percent_mass_diff >= upper_mass_diff_percentage) {
printf("Mass difference outside of acceptable range on cycle %d percent_mass_diff %lg upper limit %lg\n",ncycle,percent_mass_diff, upper_mass_diff_percentage);
error_status = STATUS_MASS_LOSS;
}
if (error_status != STATUS_OK){
if (crux_type != CRUX_NONE) {
rollback_attempt++;
if (rollback_attempt > num_of_rollback_states) {
printf("Can not recover from error from back up files. Killing program...\n");
total_program_time = cpu_timer_stop(total_exec);
FILE *fp = fopen(total_sim_time_log,"w");
fprintf(fp,"The total execution time of the program before failure was %g seconds\n", total_program_time);
fclose(fp);
state->print_failure_log(ncycle, simTime, H_sum_initial, H_sum, percent_mass_diff, true);
exit(-1);
}
if (graphic_outputInterval <= niter){
mesh->calc_spatial_coordinates(0);
set_graphics_mysize(ncells);
set_graphics_viewmode(view_mode);
set_graphics_cell_coordinates(&mesh->x[0], &mesh->dx[0], &mesh->y[0], &mesh->dy[0]);
#ifndef HALF_PRECISION
set_graphics_cell_data(&state->H[0]);
#endif
set_graphics_cell_proc(&mesh->proc[0]);
write_graphics_info(ncycle/graphic_outputInterval,ncycle,simTime,1,rollback_attempt);
}
if((ncycle - (rollback_attempt)*checkpoint_outputInterval) < 0){
printf("Rolling simulation back to ncycle 0\n");
}
else{
printf("Rolling simulation back to ncycle %d\n", ncycle - (rollback_attempt*checkpoint_outputInterval));
}
state->print_rollback_log(ncycle, simTime, H_sum_initial, H_sum, percent_mass_diff, rollback_attempt, num_of_rollback_states, error_status);
int rollback_num = crux->get_rollback_number();
restore_crux_data_bootstrap(crux, NULL, rollback_num);
mesh->terminate();
state->terminate();
restore_crux_data(crux);
} else {
printf("failure.log has been created\n");
state->print_failure_log(ncycle, simTime, H_sum_initial, H_sum, percent_mass_diff, true);
exit(-1);
}
}
if (mype == 0 && ncycle % outputInterval == 0) {
printf("Iteration %3d timestep %lf Sim Time %lf cells %ld Mass Sum %14.12lg Mass Change %12.6lg\n",
ncycle, deltaT, simTime, ncells_global, H_sum, H_sum - H_sum_initial);
}
if (ncycle == next_cp_cycle) store_crux_data(crux, ncycle);
/*
if (ncycle == next_cp_cycle) {
int have_celltype = mesh->celltype != NULL ? 1 : 0;
mesh->calc_celltype(mesh->ncells, ncycle);
if (! have_celltype) mesh->mesh_memory.memory_delete(mesh->celltype);
store_crux_data(crux, ncycle);
}
*/
cpu_timer_start(&tstart_cpu);
if(do_display_graphics || ncycle == next_graphics_cycle ||
(ncycle >= niter && graphic_outputInterval < niter) ){
mesh->calc_spatial_coordinates(0);
}
if (do_display_opengl_graphics || ncycle == next_graphics_cycle){
vector<int> &nsizes = mesh->nsizes;
vector<int> &ndispl = mesh->ndispl;
if (mype == 0) {
H_global.clear();
x_global.clear();
dx_global.clear();
y_global.clear();
dy_global.clear();
proc_global.clear();
x_global.resize(ncells_global);
dx_global.resize(ncells_global);
y_global.resize(ncells_global);
dy_global.resize(ncells_global);
H_global.resize(ncells_global);
proc_global.resize(ncells_global);
}
MPI_Gatherv(&mesh->x[0], nsizes[mype], MPI_SPATIAL_T, &x_global[0], &nsizes[0], &ndispl[0], MPI_SPATIAL_T, 0, MPI_COMM_WORLD);
MPI_Gatherv(&mesh->dx[0], nsizes[mype], MPI_SPATIAL_T, &dx_global[0], &nsizes[0], &ndispl[0], MPI_SPATIAL_T, 0, MPI_COMM_WORLD);
MPI_Gatherv(&mesh->y[0], nsizes[mype], MPI_SPATIAL_T, &y_global[0], &nsizes[0], &ndispl[0], MPI_SPATIAL_T, 0, MPI_COMM_WORLD);
MPI_Gatherv(&mesh->dy[0], nsizes[mype], MPI_SPATIAL_T, &dy_global[0], &nsizes[0], &ndispl[0], MPI_SPATIAL_T, 0, MPI_COMM_WORLD);
MPI_Gatherv(&state->H[0], nsizes[mype], MPI_STATE_T, &H_global[0], &nsizes[0], &ndispl[0], MPI_STATE_T, 0, MPI_COMM_WORLD);
if (view_mode == 0) {
mesh->proc.resize(ncells);
#ifdef _OPENMP_SIMD
#pragma omp simd
#endif
for (size_t ii = 0; ii<ncells; ii++){
mesh->proc[ii] = mesh->mype;
}
MPI_Gatherv(&mesh->proc[0], nsizes[mype], MPI_INT, &proc_global[0], &nsizes[0], &ndispl[0], MPI_INT, 0, MPI_COMM_WORLD);
}
}
if (ncycle == next_graphics_cycle){
set_graphics_mysize(ncells_global);
set_graphics_viewmode(view_mode);
set_graphics_cell_coordinates(&x_global[0], &dx_global[0],
&y_global[0], &dy_global[0]);
#ifndef HALF_PRECISION
set_graphics_cell_data(&H_global[0]);
#endif
set_graphics_cell_proc(&proc_global[0]);
if (mype == 0) {
write_graphics_info(0,0,0.0,0,0);
}
next_graphics_cycle += graphic_outputInterval;
}
#ifdef HAVE_GRAPHICS
#ifdef HAVE_OPENGL
set_display_mysize(ncells_global);
set_display_cell_coordinates(&x_global[0], &dx_global[0], &y_global[0], &dy_global[0]);
set_display_cell_data(&H_global[0]);
set_display_cell_proc(&proc_global[0]);
#endif
#ifdef HAVE_MPE
set_display_mysize(ncells);
set_display_cell_coordinates(&mesh->x[0], &mesh->dx[0], &mesh->y[0], &mesh->dy[0]);
set_display_cell_data(&state->H[0]);
set_display_cell_proc(&mesh->proc[0]);
#endif
set_display_circle_radius(circle_radius);
set_display_viewmode(view_mode);
draw_scene();
#endif
cpu_time_graphics += cpu_timer_stop(tstart_cpu);
// Output final results and timing information.
if (ncycle >= niter) {
//free_display();
if(graphic_outputInterval < niter){
cpu_timer_start(&tstart_cpu);
#ifdef HAVE_GRAPHICS
set_display_viewmode(view_mode);
#ifdef HAVE_OPENGL
set_display_mysize(ncells_global);
set_display_cell_coordinates(&x_global[0], &dx_global[0], &y_global[0], &dy_global[0]);
set_display_cell_data(&H_global[0]);
set_display_cell_proc(&proc_global[0]);
#endif
#ifdef HAVE_MPE
set_display_mysize(ncells);
set_display_cell_coordinates(&mesh->x[0], &mesh->dx[0], &mesh->y[0], &mesh->dy[0]);
set_display_cell_data(&state->H[0]);
set_display_cell_proc(&mesh->proc[0]);
#endif
#endif
if (mype == 0) {
write_graphics_info(ncycle/graphic_outputInterval,ncycle,simTime,0,0);
}
next_graphics_cycle += graphic_outputInterval;
cpu_time_graphics += cpu_timer_stop(tstart_cpu);
}
// Get overall program timing.
double elapsed_time = cpu_timer_stop(tstart);
long long mem_used = memstats_memused();
if (mem_used > 0) {
mesh->parallel_output("Memory used ",mem_used, 0, "kB");
mesh->parallel_output("Memory peak ",memstats_mempeak(), 0, "kB");
mesh->parallel_output("Memory free ",memstats_memfree(), 0, "kB");
mesh->parallel_output("Memory available ",memstats_memtotal(), 0, "kB");
}
state->output_timing_info(do_cpu_calc, do_gpu_calc, elapsed_time);
mesh->parallel_output("CPU: calc incl part meas time was",cpu_time_calcs, 0, "s");
mesh->parallel_output("CPU: calculation only time was",cpu_time_calcs-cpu_time_partmeas, 0, "s");
mesh->parallel_output("CPU: partition measure time was",cpu_time_partmeas, 0, "s");
mesh->parallel_output("CPU: graphics time was",cpu_time_graphics, 0, "s");
mesh->print_partition_measure();
mesh->print_calc_neighbor_type();
mesh->print_partition_type();
if (mype == 0) {
printf("CPU: rezone frequency \t %8.4f\tpercent\n", (double)mesh->get_cpu_counter(MESH_COUNTER_REZONE)/(double)ncycle*100.0 );
printf("CPU: calc neigh frequency \t %8.4f\tpercent\n", (double)mesh->get_cpu_counter(MESH_COUNTER_CALC_NEIGH)/(double)ncycle*100.0 );
printf("CPU: load balance frequency \t %8.4f\tpercent\n", (double)mesh->get_cpu_counter(MESH_COUNTER_LOAD_BALANCE)/(double)ncycle*100.0 );
printf("CPU: refine_smooth_iter per rezone \t %8.4f\t\n", (double)mesh->get_cpu_counter(MESH_COUNTER_REFINE_SMOOTH)/(double)mesh->get_cpu_counter(MESH_COUNTER_REZONE) );
}
mesh->terminate();
state->terminate();
terminate_graphics_output();
delete state;
delete crux;
delete parse;
L7_Terminate();
exit(0);
} // Complete final output.
} // end do_calc
const int CRUX_CLAMR_VERSION = 101;
const int num_int_vals = 15;
const int num_double_vals = 5;
MallocPlus clamr_bootstrap_memory;
void store_crux_data(Crux *crux, int ncycle)
{
size_t nsize = num_int_vals*sizeof(int) +
num_double_vals*sizeof(double);
nsize += state->get_checkpoint_size();
next_cp_cycle += checkpoint_outputInterval;
int int_vals[num_int_vals];
int_vals[ 0] = CRUX_CLAMR_VERSION; // Version number
int_vals[ 1] = nx;
int_vals[ 2] = ny;
int_vals[ 3] = levmx;
int_vals[ 4] = ndim;
int_vals[ 5] = outputInterval;
int_vals[ 6] = enhanced_precision_sum;
int_vals[ 7] = niter;
int_vals[ 8] = it;
int_vals[ 9] = ncycle;
int_vals[10] = crux_type;
int_vals[11] = graphic_outputInterval;
int_vals[12] = checkpoint_outputInterval;
int_vals[13] = next_cp_cycle;
int_vals[14] = next_graphics_cycle;
double double_vals[num_double_vals];
double_vals[ 0] = circ_radius;
double_vals[ 1] = H_sum_initial;
double_vals[ 2] = simTime;
double_vals[ 3] = deltaT;
double_vals[ 4] = upper_mass_diff_percentage;
//int flags = RESTART_DATA | REPLICATED_DATA;
//clamr_bootstrap_memory.memory_add(int_vals, size_t(num_int_vals), 4, "bootstrap_int_vals", flags);
//clamr_bootstrap_memory.memory_add(double_vals, size_t(num_double_vals), 8, "bootstrap_double_vals", flags);
crux->store_begin(nsize, ncycle);
//crux->store_MallocPlus(clamr_bootstrap_memory);
crux->store_replicated_int_array(int_vals, num_int_vals);
crux->store_replicated_double_array(double_vals, num_double_vals);
state->store_checkpoint(crux);
crux->store_end();
//clamr_bootstrap_memory.memory_remove(int_vals);
//clamr_bootstrap_memory.memory_remove(double_vals);
}
void restore_crux_data_bootstrap(Crux *crux, char *restart_file, int rollback_counter)
{
crux->restore_begin(restart_file, rollback_counter);
int int_vals[num_int_vals];
double double_vals[num_double_vals];
//int flags = RESTART_DATA | REPLICATED_DATA;
//clamr_bootstrap_memory.memory_add(int_vals, size_t(num_int_vals), 4, "bootstrap_int_vals", flags);
//clamr_bootstrap_memory.memory_add(double_vals, size_t(num_double_vals), 8, "bootstrap_double_vals", flags);
//crux->restore_MallocPlus(clamr_bootstrap_memory);
crux->restore_replicated_int_array(int_vals, num_int_vals);
crux->restore_replicated_double_array(double_vals, num_double_vals);
if (int_vals[ 0] != CRUX_CLAMR_VERSION) {
printf("CRUX version mismatch for clamr data, version on file is %d, version in code is %d\n",
int_vals[0], CRUX_CLAMR_VERSION);
exit(0);
}
nx = int_vals[ 1];
ny = int_vals[ 2];
levmx = int_vals[ 3];
ndim = int_vals[ 4];
outputInterval = int_vals[ 5];
enhanced_precision_sum = int_vals[ 6];
niter = int_vals[ 7];
it = int_vals[ 8];
ncycle = int_vals[ 9];
crux_type = int_vals[10];
graphic_outputInterval = int_vals[11];
checkpoint_outputInterval = int_vals[12];
next_cp_cycle = int_vals[13];
next_graphics_cycle = int_vals[14];
circ_radius = double_vals[ 0];
H_sum_initial = double_vals[ 1];
simTime = double_vals[ 2];
deltaT = double_vals[ 3];
upper_mass_diff_percentage = double_vals[ 4];
//clamr_bootstrap_memory.memory_remove(int_vals);
//clamr_bootstrap_memory.memory_remove(double_vals);
#ifdef DEBUG_RESTORE_VALS
int mype=0;
#ifdef HAVE_MPI
MPI_Comm_rank(MPI_COMM_WORLD,&mype);
#endif
if (DEBUG_RESTORE_VALS && mype == 0) {
const char *int_vals_descriptor[num_int_vals] = {
"CRUX_CLAMR_VERSION",
"nx",
"ny",
"levmx",
"ndim",
"outputInterval",
"enhanced_precision_sum",
"niter",
"it",
"ncycle",
"crux_type",
"graphic_outputInterval",
"checkpoint_outputInterval",
"next_cp_cycle",
"next_graphics_cycle"
};
printf("\n");
printf(" === Restored bootstrap int_vals ===\n");
for (int i = 0; i < num_int_vals; i++){
printf(" %-30s %d\n",int_vals_descriptor[i], int_vals[i]);
}
printf(" === Restored bootstrap int_vals ===\n");
printf("\n");
}
#endif
#ifdef DEBUG_RESTORE_VALS
if (DEBUG_RESTORE_VALS && mype == 0) {
const char *double_vals_descriptor[num_double_vals] = {
"circ_radius",
"H_sum_initial",
"simTime",
"deltaT",
"upper_mass_diff_percentage"
};