CJSON_PUBLIC(cJSON *) cJSONUtils_GeneratePatchesCaseSensitive(cJSON * const from, cJSON * const to)
{
cJSON *patches = cJSON_CreateArray();
create_patches(patches, (const unsigned char*)"", from, to, true);
return patches;
}
int main(int argc, char **argv)
{
int ret;
int p, ts;
int var;
int slice = 0;
int nprocs = 1, rank = 0;
char output_file_name[512];
// MPI initialization
#if PIDX_HAVE_MPI
MPI_Init(&argc, &argv);
MPI_Comm_size(MPI_COMM_WORLD, &nprocs);
MPI_Comm_rank(MPI_COMM_WORLD, &rank);
#endif
if (rank == 0)
{
ret = parse_args(argc, argv);
if (ret < 0)
{
usage();
#if PIDX_HAVE_MPI
MPI_Abort(MPI_COMM_WORLD, -1);
#else
exit(-1);
#endif
}
// check if the num procs is appropriate
int num_bricks = (global_box_size[0] / local_box_size[0]) * (global_box_size[1] / local_box_size[1]) * (global_box_size[2] / local_box_size[2]);
if(num_bricks != nprocs)
{
fprintf(stderr, "Error: number of sub-blocks (%d) doesn't match number of procs (%d)\n", num_bricks, nprocs);
fprintf(stderr, "Incorrect distribution of data across processes i.e.\n(global_x / local_x) X (global_x / local_x) X (global_x / local_x) != nprocs\n(%d/%d) X (%d/%d) X (%d/%d) != %d\n", global_box_size[0], local_box_size[0], global_box_size[1], local_box_size[1], global_box_size[2], local_box_size[2], nprocs);
#if PIDX_HAVE_MPI
MPI_Abort(MPI_COMM_WORLD, -1);
#else
exit(-1);
#endif
}
}
#if 1
// The command line arguments are shared by all processes
#if PIDX_HAVE_MPI
MPI_Bcast(global_box_size, 3, MPI_INT, 0, MPI_COMM_WORLD);
MPI_Bcast(local_box_size, 3, MPI_INT, 0, MPI_COMM_WORLD);
MPI_Bcast(&time_step_count, 1, MPI_INT, 0, MPI_COMM_WORLD);
MPI_Bcast(&variable_count, 1, MPI_INT, 0, MPI_COMM_WORLD);
MPI_Bcast(&patch_count, 1, MPI_INT, 0, MPI_COMM_WORLD);
MPI_Bcast(&output_file_template, 512, MPI_CHAR, 0, MPI_COMM_WORLD);
MPI_Bcast(&blocks_per_file, 1, MPI_INT, 0, MPI_COMM_WORLD);
MPI_Bcast(&bits_per_block, 1, MPI_INT, 0, MPI_COMM_WORLD);
MPI_Bcast(restructured_box_size, 5, MPI_LONG_LONG, 0, MPI_COMM_WORLD);
MPI_Bcast(&compression_type, 1, MPI_INT, 0, MPI_COMM_WORLD);
MPI_Bcast(&compression_bit_rate, 1, MPI_INT, 0, MPI_COMM_WORLD);
MPI_Bcast(perform_phases, 6, MPI_INT, 0, MPI_COMM_WORLD);
MPI_Bcast(debug_rst_hz, 2, MPI_INT, 0, MPI_COMM_WORLD);
MPI_Bcast(dump_agg_io, 2, MPI_INT, 0, MPI_COMM_WORLD);
MPI_Bcast(idx_count, 3, MPI_INT, 0, MPI_COMM_WORLD);
MPI_Bcast(&aggregation_factor, 1, MPI_INT, 0, MPI_COMM_WORLD);
MPI_Bcast(&is_rank_z_ordering, 1, MPI_INT, 0, MPI_COMM_WORLD);
MPI_Bcast(hz_from_to, 2, MPI_INT, 0, MPI_COMM_WORLD);
MPI_Bcast(rst_agg, 2, MPI_INT, 0, MPI_COMM_WORLD);
#endif
values_per_sample = malloc(sizeof(*values_per_sample) * variable_count);
memset(values_per_sample, 0, sizeof(*values_per_sample) * variable_count);
// Creating the filename
sprintf(output_file_name, "%s%s", output_file_template,".idx");
// Calculating every process data's offset and size
int sub_div[3];
sub_div[0] = (global_box_size[0] / local_box_size[0]);
sub_div[1] = (global_box_size[1] / local_box_size[1]);
sub_div[2] = (global_box_size[2] / local_box_size[2]);
local_box_offset[2] = (rank / (sub_div[0] * sub_div[1])) * local_box_size[2];
slice = rank % (sub_div[0] * sub_div[1]);
local_box_offset[1] = (slice / sub_div[0]) * local_box_size[1];
local_box_offset[0] = (slice % sub_div[0]) * local_box_size[0];
unsigned int rank_x = 0, rank_y = 0, rank_z = 0, rank_slice;
if (is_rank_z_ordering == 0)
{
rank_z = rank / (sub_div[0] * sub_div[1]);
rank_slice = rank % (sub_div[0] * sub_div[1]);
rank_y = (rank_slice / sub_div[0]);
rank_x = (rank_slice % sub_div[0]);
}
create_patches();
PIDX_file file; // IDX file descriptor
PIDX_variable* variable; // variable descriptor
variable = malloc(sizeof(*variable) * variable_count);
memset(variable, 0, sizeof(*variable) * variable_count);
PIDX_point global_bounding_box, **local_offset_point, **local_box_count_point;
local_offset_point = malloc(sizeof(PIDX_point*) * variable_count);
local_box_count_point = malloc(sizeof(PIDX_point*) * variable_count);
for(var = 0; var < variable_count; var++)
{
local_offset_point[var] = malloc(sizeof(PIDX_point) * patch_count);
local_box_count_point[var] = malloc(sizeof(PIDX_point) * patch_count);
for(p = 0 ; p < patch_count ; p++)
{
PIDX_set_point_5D(local_offset_point[var][p], (int64_t)local_patch_offset[var][p][0], (int64_t)local_patch_offset[var][p][1], (int64_t)local_patch_offset[var][p][2], 0, 0);
PIDX_set_point_5D(local_box_count_point[var][p], (int64_t)local_patch_size[var][p][0], (int64_t)local_patch_size[var][p][1], (int64_t)local_patch_size[var][p][2], 1, 1);
}
}
PIDX_set_point_5D(global_bounding_box, (int64_t)global_box_size[0], (int64_t)global_box_size[1], (int64_t)global_box_size[2], 1, 1);
PIDX_access access;
PIDX_create_access(&access);
#if PIDX_HAVE_MPI
PIDX_set_mpi_access(access, MPI_COMM_WORLD);
PIDX_set_idx_count(access, idx_count[0], idx_count[1], idx_count[2]);
PIDX_set_process_extent(access, sub_div[0], sub_div[1], sub_div[2]);
PIDX_set_process_rank_decomposition(access, rank_x, rank_y, rank_z);
#endif
for (ts = 0; ts < time_step_count; ts++)
{
PIDX_file_create(output_file_name, PIDX_MODE_CREATE, access, &file);
PIDX_set_dims(file, global_bounding_box);
PIDX_set_current_time_step(file, ts);
PIDX_set_variable_count(file, variable_count);
PIDX_set_resolution(file, hz_from_to[0], hz_from_to[1]);
PIDX_set_block_size(file, bits_per_block);
PIDX_set_block_count(file, blocks_per_file);
// PIDX set restructuring box size
PIDX_set_restructuring_box(file, restructured_box_size);
// PIDX compression related calls
if (compression_type == 0)
PIDX_set_compression_type(file, PIDX_NO_COMPRESSION);
if (compression_type == 1)
PIDX_set_compression_type(file, PIDX_CHUNKING_ONLY);
if (compression_type == 2)
{
PIDX_set_compression_type(file, PIDX_CHUNKING_ZFP);
PIDX_set_lossy_compression_bit_rate(file, compression_bit_rate);
}
PIDX_debug_rst(file, debug_rst_hz[0]);
PIDX_debug_hz(file, debug_rst_hz[1]);
PIDX_dump_agg_info(file, dump_agg_io[0]);
PIDX_dump_io_info(file, dump_agg_io[1]);
if (perform_phases[0] == 0)
PIDX_debug_disable_restructuring(file);
if (perform_phases[1] == 0)
PIDX_debug_disable_chunking(file);
if (perform_phases[2] == 0)
PIDX_debug_disable_hz(file);
if (perform_phases[3] == 0)
PIDX_debug_disable_compression(file);
if (perform_phases[4] == 0)
PIDX_debug_disable_agg(file);
if (perform_phases[5] == 0)
PIDX_debug_disable_io(file);
if (rst_agg[0] == 0)
PIDX_disable_rst(file);
if (rst_agg[1] == 0)
PIDX_disable_agg(file);
for (var = 0; var < variable_count; var++)
{
char variable_name[512];
char data_type[512];
sprintf(variable_name, "variable_%d", var);
sprintf(data_type, "%d*float64", values_per_sample[var]);
ret = PIDX_variable_create(variable_name, sizeof(double) * 8, data_type, &variable[var]);
if (ret != PIDX_success) report_error("PIDX_variable_create", __FILE__, __LINE__);
for (p = 0 ; p < patch_count ; p++)
{
ret = PIDX_variable_write_data_layout(variable[var], local_offset_point[var][p], local_box_count_point[var][p], NULL, PIDX_row_major);
if (ret != PIDX_success) report_error("PIDX_variable_data_layout", __FILE__, __LINE__);
}
ret = PIDX_append_and_write_variable(file, variable[var]);
if (ret != PIDX_success) report_error("PIDX_append_and_write_variable", __FILE__, __LINE__);
ret = PIDX_flush(file);
}
ret = PIDX_close(file);
if (ret != PIDX_success) report_error("PIDX_close", __FILE__, __LINE__);
}
PIDX_close_access(access);
for(var = 0; var < variable_count; var++)
{
free(local_offset_point[var]);
free(local_box_count_point[var]);
}
free(local_offset_point);
free(local_box_count_point);
free(variable);
variable = 0;
free(values_per_sample);
values_per_sample = 0;
destroy_patches();
#endif
#if PIDX_HAVE_MPI
MPI_Finalize();
#endif
return 0;
}
static void create_patches(cJSON * const patches, const unsigned char * const path, cJSON * const from, cJSON * const to, const cJSON_bool case_sensitive)
{
if ((from == NULL) || (to == NULL))
{
return;
}
if ((from->type & 0xFF) != (to->type & 0xFF))
{
compose_patch(patches, (const unsigned char*)"replace", path, 0, to);
return;
}
switch (from->type & 0xFF)
{
case cJSON_Number:
if ((from->valueint != to->valueint) || (from->valuedouble != to->valuedouble))
{
compose_patch(patches, (const unsigned char*)"replace", path, NULL, to);
}
return;
case cJSON_String:
if (strcmp(from->valuestring, to->valuestring) != 0)
{
compose_patch(patches, (const unsigned char*)"replace", path, NULL, to);
}
return;
case cJSON_Array:
{
size_t index = 0;
cJSON *from_child = from->child;
cJSON *to_child = to->child;
unsigned char *new_path = (unsigned char*)cJSON_malloc(strlen((const char*)path) + 20 + sizeof("/")); /* Allow space for 64bit int. log10(2^64) = 20 */
/* generate patches for all array elements that exist in both "from" and "to" */
for (index = 0; (from_child != NULL) && (to_child != NULL); (void)(from_child = from_child->next), (void)(to_child = to_child->next), index++)
{
/* check if conversion to unsigned long is valid
* This should be eliminated at compile time by dead code elimination
* if size_t is an alias of unsigned long, or if it is bigger */
if (index > ULONG_MAX)
{
cJSON_free(new_path);
return;
}
sprintf((char*)new_path, "%s/%lu", path, (unsigned long)index); /* path of the current array element */
create_patches(patches, new_path, from_child, to_child, case_sensitive);
}
/* remove leftover elements from 'from' that are not in 'to' */
for (; (from_child != NULL); (void)(from_child = from_child->next))
{
/* check if conversion to unsigned long is valid
* This should be eliminated at compile time by dead code elimination
* if size_t is an alias of unsigned long, or if it is bigger */
if (index > ULONG_MAX)
{
cJSON_free(new_path);
return;
}
sprintf((char*)new_path, "%lu", (unsigned long)index);
compose_patch(patches, (const unsigned char*)"remove", path, new_path, NULL);
}
/* add new elements in 'to' that were not in 'from' */
for (; (to_child != NULL); (void)(to_child = to_child->next), index++)
{
compose_patch(patches, (const unsigned char*)"add", path, (const unsigned char*)"-", to_child);
}
cJSON_free(new_path);
return;
}
case cJSON_Object:
{
cJSON *from_child = NULL;
cJSON *to_child = NULL;
sort_object(from, case_sensitive);
sort_object(to, case_sensitive);
from_child = from->child;
to_child = to->child;
/* for all object values in the object with more of them */
while ((from_child != NULL) || (to_child != NULL))
{
int diff;
if (from_child == NULL)
{
diff = 1;
}
else if (to_child == NULL)
{
diff = -1;
}
else
{
diff = compare_strings((unsigned char*)from_child->string, (unsigned char*)to_child->string, case_sensitive);
}
if (diff == 0)
{
/* both object keys are the same */
size_t path_length = strlen((const char*)path);
size_t from_child_name_length = pointer_encoded_length((unsigned char*)from_child->string);
unsigned char *new_path = (unsigned char*)cJSON_malloc(path_length + from_child_name_length + sizeof("/"));
sprintf((char*)new_path, "%s/", path);
encode_string_as_pointer(new_path + path_length + 1, (unsigned char*)from_child->string);
/* create a patch for the element */
create_patches(patches, new_path, from_child, to_child, case_sensitive);
cJSON_free(new_path);
from_child = from_child->next;
to_child = to_child->next;
}
else if (diff < 0)
{
/* object element doesn't exist in 'to' --> remove it */
compose_patch(patches, (const unsigned char*)"remove", path, (unsigned char*)from_child->string, NULL);
from_child = from_child->next;
}
else
{
/* object element doesn't exist in 'from' --> add it */
compose_patch(patches, (const unsigned char*)"add", path, (unsigned char*)to_child->string, to_child);
to_child = to_child->next;
}
}
return;
}
default:
break;
}
}
