int mca_fcoll_dynamic_file_write_all (mca_io_ompio_file_t *fh, void *buf, int count, struct ompi_datatype_t *datatype, ompi_status_public_t *status) { MPI_Aint total_bytes_written = 0; /* total bytes that have been written*/ MPI_Aint total_bytes = 0; /* total bytes to be written */ MPI_Aint bytes_to_write_in_cycle = 0; /* left to be written in a cycle*/ MPI_Aint bytes_per_cycle = 0; /* total written in each cycle by each process*/ int index = 0; int cycles = 0; int i=0, j=0, l=0; int n=0; /* current position in total_bytes_per_process array */ MPI_Aint bytes_remaining = 0; /* how many bytes have been written from the current value from total_bytes_per_process */ int bytes_sent = 0, ret =0; int blocks=0, entries_per_aggregator=0; /* iovec structure and count of the buffer passed in */ uint32_t iov_count = 0; struct iovec *decoded_iov = NULL; int iov_index = 0; char *send_buf = NULL; size_t current_position = 0; struct iovec *local_iov_array=NULL, *global_iov_array=NULL; local_io_array *file_offsets_for_agg=NULL; /* global iovec at the writers that contain the iovecs created from file_set_view */ uint32_t total_fview_count = 0; int local_count = 0, temp_pindex; int *fview_count = NULL, *disp_index=NULL, *temp_disp_index=NULL; int current_index = 0, temp_index=0; char *global_buf = NULL; MPI_Aint global_count = 0; /* array that contains the sorted indices of the global_iov */ int *sorted = NULL, *sorted_file_offsets=NULL; int *displs = NULL; size_t max_data = 0; int **blocklen_per_process=NULL; MPI_Aint **displs_per_process=NULL, *memory_displacements=NULL; ompi_datatype_t **recvtype = NULL; MPI_Aint *total_bytes_per_process = NULL; MPI_Request *send_req=NULL, *recv_req=NULL; int datatype_size, recv_req_count=0; #if TIME_BREAKDOWN double start_time=0.0, end_time=0.0, start_time2=0.0, end_time2=0.0; double total=0.0 , total_io=0.0, max_io=0.0; /* max_pp=0.0;*/ double start_ptime=0.0, end_ptime=0.0, tpw=0.0; /* max_tpw=0.0;*/ double start_cio_array=0.0, end_cio_array=0.0, tcio_array=0.0;/* max_cio=0.0;*/ double start_sr=0.0, end_sr=0.0, tsr=0.0;/* max_sr=0.0;*/ double comm_time = 0.0, max_comm_time=0.0; double write_time = 0.0, max_write_time=0.0; #endif #if TIME_BREAKDOWN start_time = MPI_Wtime(); #endif if (opal_datatype_is_contiguous_memory_layout(&datatype->super,1)) { fh->f_flags |= OMPIO_CONTIGUOUS_MEMORY; } /************************************************************************** ** In case the data is not contigous in memory, decode it into an iovec ** **************************************************************************/ if (! (fh->f_flags & OMPIO_CONTIGUOUS_MEMORY)) { ret = ompi_io_ompio_decode_datatype (fh, datatype, count, buf, &max_data, &decoded_iov, &iov_count); if (OMPI_SUCCESS != ret ){ goto exit; } } else { max_data = count * datatype->super.size; } if ( MPI_STATUS_IGNORE != status ) { status->_ucount = max_data; } if (! (fh->f_flags & OMPIO_AGGREGATOR_IS_SET)) { ret = ompi_io_ompio_set_aggregator_props (fh, mca_fcoll_dynamic_num_io_procs, max_data); if (OMPI_SUCCESS != ret){ goto exit; } } if (-1 == mca_fcoll_dynamic_num_io_procs) { mca_fcoll_dynamic_num_io_procs = 1; } #if TIME_BREAKDOWN if (fh->f_procs_in_group[fh->f_aggregator_index] == fh->f_rank) { start_time = MPI_Wtime(); } #endif total_bytes_per_process = (MPI_Aint*)malloc (fh->f_procs_per_group*sizeof(MPI_Aint)); if (NULL == total_bytes_per_process) { opal_output (1, "OUT OF MEMORY\n"); ret = OMPI_ERR_OUT_OF_RESOURCE; goto exit; } ret = ompi_io_ompio_allgather_array (&max_data, 1, MPI_LONG, total_bytes_per_process, 1, MPI_LONG, fh->f_aggregator_index, fh->f_procs_in_group, fh->f_procs_per_group, fh->f_comm); if( OMPI_SUCCESS != ret){ goto exit; } for (i=0 ; i<fh->f_procs_per_group ; i++) { total_bytes += total_bytes_per_process[i]; } if (NULL != total_bytes_per_process) { free (total_bytes_per_process); total_bytes_per_process = NULL; } /********************************************************************* *** Generate the File offsets/lengths corresponding to this write *** ********************************************************************/ ret = ompi_io_ompio_generate_current_file_view(fh, max_data, &local_iov_array, &local_count); if (ret != OMPI_SUCCESS){ goto exit; } #if DEBUG_ON for (i=0 ; i<local_count ; i++) { printf("Local offset-length pair for rank:%d \n", fh->f_rank); printf("%d: OFFSET: %p LENGTH: %lld\n", fh->f_rank, iov[i].iov_base, iov[i].iov_len); } #endif /************************************************************* *** ALLGather the File View information at all processes *** *************************************************************/ fview_count = (int *) malloc (fh->f_procs_per_group * sizeof (int)); if (NULL == fview_count) { opal_output (1, "OUT OF MEMORY\n"); ret = OMPI_ERR_OUT_OF_RESOURCE; goto exit; } ret = ompi_io_ompio_allgather_array (&local_count, 1, MPI_INT, fview_count, 1, MPI_INT, fh->f_aggregator_index, fh->f_procs_in_group, fh->f_procs_per_group, fh->f_comm); if( OMPI_SUCCESS != ret){ goto exit; } displs = (int*) malloc (fh->f_procs_per_group * sizeof (int)); if (NULL == displs) { opal_output (1, "OUT OF MEMORY\n"); ret = OMPI_ERR_OUT_OF_RESOURCE; goto exit; } displs[0] = 0; total_fview_count = fview_count[0]; for (i=1 ; i<fh->f_procs_per_group ; i++) { total_fview_count += fview_count[i]; displs[i] = displs[i-1] + fview_count[i-1]; } #if DEBUG_ON if (fh->f_procs_in_group[fh->f_aggregator_index] == fh->f_rank) { for (i=0 ; i<fh->f_procs_per_group ; i++) { printf ("%d: PROCESS: %d ELEMENTS: %d DISPLS: %d\n", fh->f_rank, i, fview_count[i], displs[i]); } } #endif /* allocate the global iovec */ if (0 != total_fview_count) { global_iov_array = (struct iovec*) malloc (total_fview_count * sizeof(struct iovec)); if (NULL == global_iov_array){ opal_output(1, "OUT OF MEMORY\n"); ret = OMPI_ERR_OUT_OF_RESOURCE; goto exit; } } if (fh->f_flags & OMPIO_UNIFORM_FVIEW) { ret = ompi_io_ompio_allgather_array (local_iov_array, local_count, fh->f_iov_type, global_iov_array, local_count, fh->f_iov_type, fh->f_aggregator_index, fh->f_procs_in_group, fh->f_procs_per_group, fh->f_comm); if (OMPI_SUCCESS != ret){ goto exit; } } else { ret = ompi_io_ompio_allgatherv_array (local_iov_array, local_count, fh->f_iov_type, global_iov_array, fview_count, displs, fh->f_iov_type, fh->f_aggregator_index, fh->f_procs_in_group, fh->f_procs_per_group, fh->f_comm); if (OMPI_SUCCESS != ret){ goto exit; } } /* sort it */ if (0 != total_fview_count) { sorted = (int *)malloc (total_fview_count * sizeof(int)); if (NULL == sorted) { opal_output (1, "OUT OF MEMORY\n"); ret = OMPI_ERR_OUT_OF_RESOURCE; goto exit; } ompi_io_ompio_sort_iovec (global_iov_array, total_fview_count, sorted); } if (NULL != local_iov_array){ free(local_iov_array); local_iov_array = NULL; } if (NULL != displs){ free(displs); displs=NULL; } #if DEBUG_ON if (fh->f_procs_in_group[fh->f_aggregator_index] == fh->f_rank) { uint32_t tv=0; for (tv=0 ; tv<total_fview_count ; tv++) { printf("%d: OFFSET: %lld LENGTH: %ld\n", fh->f_rank, global_iov_array[sorted[tv]].offset, global_iov_array[sorted[tv]].length); } } #endif if (fh->f_procs_in_group[fh->f_aggregator_index] == fh->f_rank) { disp_index = (int *)malloc (fh->f_procs_per_group * sizeof (int)); if (NULL == disp_index) { opal_output (1, "OUT OF MEMORY\n"); ret = OMPI_ERR_OUT_OF_RESOURCE; goto exit; } blocklen_per_process = (int **)malloc (fh->f_procs_per_group * sizeof (int*)); if (NULL == blocklen_per_process) { opal_output (1, "OUT OF MEMORY\n"); ret = OMPI_ERR_OUT_OF_RESOURCE; goto exit; } displs_per_process = (MPI_Aint **)malloc (fh->f_procs_per_group * sizeof (MPI_Aint*)); if (NULL == displs_per_process) { opal_output (1, "OUT OF MEMORY\n"); ret = OMPI_ERR_OUT_OF_RESOURCE; goto exit; } for(i=0;i<fh->f_procs_per_group;i++){ blocklen_per_process[i] = NULL; displs_per_process[i] = NULL; } } bytes_per_cycle = mca_fcoll_dynamic_cycle_buffer_size; cycles = ceil((double)total_bytes/bytes_per_cycle); n = 0; bytes_remaining = 0; current_index = 0; #if TIME_BREAKDOWN end_time = MPI_Wtime(); total = end_time-start_time; start_time2 = MPI_Wtime(); #endif for (index = 0; index < cycles; index++) { /* Getting ready for next cycle Initializing and freeing buffers*/ if (fh->f_procs_in_group[fh->f_aggregator_index] == fh->f_rank) { if (NULL == recvtype){ recvtype = (ompi_datatype_t **) malloc (fh->f_procs_per_group * sizeof(ompi_datatype_t *)); if (NULL == recvtype) { opal_output (1, "OUT OF MEMORY\n"); ret = OMPI_ERR_OUT_OF_RESOURCE; goto exit; } } for(l=0;l<fh->f_procs_per_group;l++){ disp_index[l] = 1; if (NULL != blocklen_per_process[l]){ free(blocklen_per_process[l]); blocklen_per_process[l] = NULL; } if (NULL != displs_per_process[l]){ free(displs_per_process[l]); displs_per_process[l] = NULL; } blocklen_per_process[l] = (int *) calloc (1, sizeof(int)); if (NULL == blocklen_per_process[l]) { opal_output (1, "OUT OF MEMORY for blocklen\n"); ret = OMPI_ERR_OUT_OF_RESOURCE; goto exit; } displs_per_process[l] = (MPI_Aint *) calloc (1, sizeof(MPI_Aint)); if (NULL == displs_per_process[l]){ opal_output (1, "OUT OF MEMORY for displs\n"); ret = OMPI_ERR_OUT_OF_RESOURCE; goto exit; } } if (NULL != sorted_file_offsets){ free(sorted_file_offsets); sorted_file_offsets = NULL; } if(NULL != file_offsets_for_agg){ free(file_offsets_for_agg); file_offsets_for_agg = NULL; } if (NULL != memory_displacements){ free(memory_displacements); memory_displacements = NULL; } } if (cycles-1 == index) { bytes_to_write_in_cycle = total_bytes - bytes_per_cycle*index; } else { bytes_to_write_in_cycle = bytes_per_cycle; } #if DEBUG_ON if (fh->f_procs_in_group[fh->f_aggregator_index] == fh->f_rank) { printf ("****%d: CYCLE %d Bytes %lld**********\n", fh->f_rank, index, bytes_to_write_in_cycle); } #endif /********************************************************** **Gather the Data from all the processes at the writers ** *********************************************************/ /* Calculate how much data will be contributed in this cycle by each process*/ bytes_sent = 0; #if DEBUG_ON printf("bytes_to_write_in_cycle: %ld, cycle : %d\n", bytes_to_write_in_cycle, index); #endif /* The blocklen and displs calculation only done at aggregators!*/ #if TIME_BREAKDOWN start_cio_array = MPI_Wtime(); #endif while (bytes_to_write_in_cycle) { blocks = fview_count[0]; for (j=0 ; j<fh->f_procs_per_group ; j++) { if (sorted[current_index] < blocks) { n = j; break; } else { blocks += fview_count[j+1]; } } if (bytes_remaining) { if (bytes_remaining <= bytes_to_write_in_cycle) { if (fh->f_procs_in_group[fh->f_aggregator_index] == fh->f_rank) { blocklen_per_process[n][disp_index[n] - 1] = bytes_remaining; displs_per_process[n][disp_index[n] - 1] = (OPAL_PTRDIFF_TYPE)global_iov_array[sorted[current_index]].iov_base + (global_iov_array[sorted[current_index]].iov_len - bytes_remaining); } if (fh->f_procs_in_group[n] == fh->f_rank) { bytes_sent += bytes_remaining; } current_index ++; bytes_to_write_in_cycle -= bytes_remaining; bytes_remaining = 0; if (fh->f_procs_in_group[fh->f_aggregator_index] == fh->f_rank) { /* In this cases the length is consumed so allocating for next displacement and blocklength*/ blocklen_per_process[n] = (int *) realloc ((void *)blocklen_per_process[n], (disp_index[n]+1)*sizeof(int)); displs_per_process[n] = (MPI_Aint *) realloc ((void *)displs_per_process[n], (disp_index[n]+1)*sizeof(MPI_Aint)); blocklen_per_process[n][disp_index[n]] = 0; displs_per_process[n][disp_index[n]] = 0; disp_index[n] += 1; } continue; } else { if (fh->f_procs_in_group[fh->f_aggregator_index] == fh->f_rank) { blocklen_per_process[n][disp_index[n] - 1] = bytes_to_write_in_cycle; displs_per_process[n][disp_index[n] - 1] = (OPAL_PTRDIFF_TYPE)global_iov_array[sorted[current_index]].iov_base + (global_iov_array[sorted[current_index]].iov_len - bytes_remaining); } if (fh->f_procs_in_group[n] == fh->f_rank) { bytes_sent += bytes_to_write_in_cycle; } bytes_remaining -= bytes_to_write_in_cycle; bytes_to_write_in_cycle = 0; break; } } else { if (bytes_to_write_in_cycle < (MPI_Aint) global_iov_array[sorted[current_index]].iov_len) { if (fh->f_procs_in_group[fh->f_aggregator_index] == fh->f_rank) { blocklen_per_process[n][disp_index[n] - 1] = bytes_to_write_in_cycle; displs_per_process[n][disp_index[n] - 1] = (OPAL_PTRDIFF_TYPE)global_iov_array[sorted[current_index]].iov_base ; } if (fh->f_procs_in_group[n] == fh->f_rank) { bytes_sent += bytes_to_write_in_cycle; } bytes_remaining = global_iov_array[sorted[current_index]].iov_len - bytes_to_write_in_cycle; bytes_to_write_in_cycle = 0; break; } else { if (fh->f_procs_in_group[fh->f_aggregator_index] == fh->f_rank) { blocklen_per_process[n][disp_index[n] - 1] = global_iov_array[sorted[current_index]].iov_len; displs_per_process[n][disp_index[n] - 1] = (OPAL_PTRDIFF_TYPE) global_iov_array[sorted[current_index]].iov_base; blocklen_per_process[n] = (int *) realloc ((void *)blocklen_per_process[n], (disp_index[n]+1)*sizeof(int)); displs_per_process[n] = (MPI_Aint *)realloc ((void *)displs_per_process[n], (disp_index[n]+1)*sizeof(MPI_Aint)); blocklen_per_process[n][disp_index[n]] = 0; displs_per_process[n][disp_index[n]] = 0; disp_index[n] += 1; /*realloc for next blocklength and assign this displacement and check for next displs as the total length of this entry has been consumed!*/ } if (fh->f_procs_in_group[n] == fh->f_rank) { bytes_sent += global_iov_array[sorted[current_index]].iov_len; } bytes_to_write_in_cycle -= global_iov_array[sorted[current_index]].iov_len; current_index ++; continue; } } } #if TIME_BREAKDOWN start_sr = MPI_Wtime(); #endif /* Calculate the displacement on where to put the data and allocate the recieve buffer (global_buf) */ if (fh->f_procs_in_group[fh->f_aggregator_index] == fh->f_rank) { entries_per_aggregator=0; for (i=0;i<fh->f_procs_per_group; i++){ for (j=0;j<disp_index[i];j++){ if (blocklen_per_process[i][j] > 0) entries_per_aggregator++ ; } } #if DEBUG_ON printf("%d: cycle: %d, bytes_sent: %d\n ",fh->f_rank,index, bytes_sent); printf("%d : Entries per aggregator : %d\n",fh->f_rank,entries_per_aggregator); #endif if (entries_per_aggregator > 0){ file_offsets_for_agg = (local_io_array *) malloc(entries_per_aggregator*sizeof(local_io_array)); if (NULL == file_offsets_for_agg) { opal_output (1, "OUT OF MEMORY\n"); ret = OMPI_ERR_OUT_OF_RESOURCE; goto exit; } sorted_file_offsets = (int *) malloc (entries_per_aggregator*sizeof(int)); if (NULL == sorted_file_offsets){ opal_output (1, "OUT OF MEMORY\n"); ret = OMPI_ERR_OUT_OF_RESOURCE; goto exit; } /*Moving file offsets to an IO array!*/ temp_index = 0; for (i=0;i<fh->f_procs_per_group; i++){ for(j=0;j<disp_index[i];j++){ if (blocklen_per_process[i][j] > 0){ file_offsets_for_agg[temp_index].length = blocklen_per_process[i][j]; file_offsets_for_agg[temp_index].process_id = i; file_offsets_for_agg[temp_index].offset = displs_per_process[i][j]; temp_index++; #if DEBUG_ON printf("************Cycle: %d, Aggregator: %d ***************\n", index+1,fh->f_rank); printf("%d sends blocklen[%d]: %d, disp[%d]: %ld to %d\n", fh->f_procs_in_group[i],j, blocklen_per_process[i][j],j, displs_per_process[i][j], fh->f_rank); #endif } } } } else{ continue; } /* Sort the displacements for each aggregator*/ local_heap_sort (file_offsets_for_agg, entries_per_aggregator, sorted_file_offsets); /*create contiguous memory displacements based on blocklens on the same displs array and map it to this aggregator's actual file-displacements (this is in the io-array created above)*/ memory_displacements = (MPI_Aint *) malloc (entries_per_aggregator * sizeof(MPI_Aint)); memory_displacements[sorted_file_offsets[0]] = 0; for (i=1; i<entries_per_aggregator; i++){ memory_displacements[sorted_file_offsets[i]] = memory_displacements[sorted_file_offsets[i-1]] + file_offsets_for_agg[sorted_file_offsets[i-1]].length; } temp_disp_index = (int *)calloc (1, fh->f_procs_per_group * sizeof (int)); if (NULL == temp_disp_index) { opal_output (1, "OUT OF MEMORY\n"); return OMPI_ERR_OUT_OF_RESOURCE; } /*Now update the displacements array with memory offsets*/ global_count = 0; for (i=0;i<entries_per_aggregator;i++){ temp_pindex = file_offsets_for_agg[sorted_file_offsets[i]].process_id; displs_per_process[temp_pindex][temp_disp_index[temp_pindex]] = memory_displacements[sorted_file_offsets[i]]; if (temp_disp_index[temp_pindex] < disp_index[temp_pindex]) temp_disp_index[temp_pindex] += 1; else{ printf("temp_disp_index[%d]: %d is greater than disp_index[%d]: %d\n", temp_pindex, temp_disp_index[temp_pindex], temp_pindex, disp_index[temp_pindex]); } global_count += file_offsets_for_agg[sorted_file_offsets[i]].length; } if (NULL != temp_disp_index){ free(temp_disp_index); temp_disp_index = NULL; } #if DEBUG_ON printf("************Cycle: %d, Aggregator: %d ***************\n", index+1,fh->f_rank); for (i=0;i<fh->f_procs_per_group; i++){ for(j=0;j<disp_index[i];j++){ if (blocklen[i][j] > 0){ printf("%d sends blocklen[%d]: %d, disp[%d]: %ld to %d\n", fh->f_procs_in_group[i],j, blocklen_per_process[i][j],j, displs_per_process[i][j], fh->f_rank); } } } printf("************Cycle: %d, Aggregator: %d ***************\n", index+1,fh->f_rank); for (i=0; i<entries_per_aggregator;i++){ printf("%d: OFFSET: %lld LENGTH: %ld, Mem-offset: %ld\n", file_offsets_for_agg[sorted_file_offsets[i]].process_id, file_offsets_for_agg[sorted_file_offsets[i]].offset, file_offsets_for_agg[sorted_file_offsets[i]].length, memory_displacements[sorted_file_offsets[i]]); } printf("%d : global_count : %ld, bytes_sent : %d\n", fh->f_rank,global_count, bytes_sent); #endif global_buf = (char *) malloc (global_count); if (NULL == global_buf){ opal_output(1, "OUT OF MEMORY"); ret = OMPI_ERR_OUT_OF_RESOURCE; goto exit; } recv_req_count = 0; for (i=0;i<fh->f_procs_per_group; i++){ ompi_datatype_create_hindexed(disp_index[i], blocklen_per_process[i], displs_per_process[i], MPI_BYTE, &recvtype[i]); ompi_datatype_commit(&recvtype[i]); MPI_Type_size (recvtype[i], &datatype_size); if (datatype_size){ recv_req = (MPI_Request *)realloc ((void *)recv_req, (recv_req_count + 1)*sizeof(MPI_Request)); ret = MCA_PML_CALL(irecv(global_buf, 1, recvtype[i], fh->f_procs_in_group[i], 123, fh->f_comm, &recv_req[recv_req_count])); recv_req_count++; if (OMPI_SUCCESS != ret){ goto exit; } } } } #if TIME_BREAKDOWN end_cio_array = MPI_Wtime(); tcio_array = end_cio_array - start_cio_array; #endif if (fh->f_flags & OMPIO_CONTIGUOUS_MEMORY) { send_buf = &((char*)buf)[total_bytes_written]; } else if (bytes_sent) { /* allocate a send buffer and copy the data that needs to be sent into it in case the data is non-contigous in memory */ OPAL_PTRDIFF_TYPE mem_address; size_t remaining = 0; size_t temp_position = 0; send_buf = malloc (bytes_sent); if (NULL == send_buf) { opal_output (1, "OUT OF MEMORY\n"); return OMPI_ERR_OUT_OF_RESOURCE; } remaining = bytes_sent; while (remaining) { mem_address = (OPAL_PTRDIFF_TYPE) (decoded_iov[iov_index].iov_base) + current_position; if (remaining >= (decoded_iov[iov_index].iov_len - current_position)) { memcpy (send_buf+temp_position, (IOVBASE_TYPE *)mem_address, decoded_iov[iov_index].iov_len - current_position); remaining = remaining - (decoded_iov[iov_index].iov_len - current_position); temp_position = temp_position + (decoded_iov[iov_index].iov_len - current_position); iov_index = iov_index + 1; current_position = 0; } else { memcpy (send_buf+temp_position, (IOVBASE_TYPE *) mem_address, remaining); current_position = current_position + remaining; remaining = 0; } } } total_bytes_written += bytes_sent; /* Gather the sendbuf from each process in appropritate locations in aggregators*/ send_req = (MPI_Request *) malloc (sizeof(MPI_Request)); if (NULL == send_req){ opal_output (1, "OUT OF MEMORY\n"); ret = OMPI_ERR_OUT_OF_RESOURCE; goto exit; } if (bytes_sent){ ret = MCA_PML_CALL(isend(send_buf, bytes_sent, MPI_BYTE, fh->f_procs_in_group[fh->f_aggregator_index], 123, MCA_PML_BASE_SEND_STANDARD, fh->f_comm, send_req)); if ( OMPI_SUCCESS != ret ){ goto exit; } ret = ompi_request_wait(send_req, MPI_STATUS_IGNORE); if (OMPI_SUCCESS != ret){ goto exit; } } if (fh->f_procs_in_group[fh->f_aggregator_index] == fh->f_rank) { ret = ompi_request_wait_all (recv_req_count, recv_req, MPI_STATUS_IGNORE); if (OMPI_SUCCESS != ret){ goto exit; } } #if DEBUG_ON if (fh->f_procs_in_group[fh->f_aggregator_index] == fh->f_rank){ printf("************Cycle: %d, Aggregator: %d ***************\n", index+1,fh->f_rank); for (i=0 ; i<global_count/4 ; i++) printf (" RECV %d \n",((int *)global_buf)[i]); } #endif #if TIME_BREAKDOWN end_sr = MPI_Wtime(); tsr = end_sr - start_sr; comm_time += tsr; #endif if (! (fh->f_flags & OMPIO_CONTIGUOUS_MEMORY)) { if (NULL != send_buf) { free (send_buf); send_buf = NULL; } } /********************************************************** **************** DONE GATHERING OF DATA ****************** *********************************************************/ /********************************************************** ******* Create the io array, and pass it to fbtl ********* *********************************************************/ if (fh->f_procs_in_group[fh->f_aggregator_index] == fh->f_rank) { fh->f_io_array = (mca_io_ompio_io_array_t *) malloc (entries_per_aggregator * sizeof (mca_io_ompio_io_array_t)); if (NULL == fh->f_io_array) { opal_output(1, "OUT OF MEMORY\n"); return OMPI_ERR_OUT_OF_RESOURCE; } fh->f_num_of_io_entries = 0; /*First entry for every aggregator*/ fh->f_io_array[fh->f_num_of_io_entries].offset = (IOVBASE_TYPE *)file_offsets_for_agg[sorted_file_offsets[0]].offset; fh->f_io_array[fh->f_num_of_io_entries].length = file_offsets_for_agg[sorted_file_offsets[0]].length; fh->f_io_array[fh->f_num_of_io_entries].memory_address = global_buf+memory_displacements[sorted_file_offsets[0]]; fh->f_num_of_io_entries++; for (i=1;i<entries_per_aggregator;i++){ /* If the enrties are contiguous merge them, else make a new entry */ if (file_offsets_for_agg[sorted_file_offsets[i-1]].offset + file_offsets_for_agg[sorted_file_offsets[i-1]].length == file_offsets_for_agg[sorted_file_offsets[i]].offset){ fh->f_io_array[fh->f_num_of_io_entries - 1].length += file_offsets_for_agg[sorted_file_offsets[i]].length; } else { fh->f_io_array[fh->f_num_of_io_entries].offset = (IOVBASE_TYPE *)file_offsets_for_agg[sorted_file_offsets[i]].offset; fh->f_io_array[fh->f_num_of_io_entries].length = file_offsets_for_agg[sorted_file_offsets[i]].length; fh->f_io_array[fh->f_num_of_io_entries].memory_address = global_buf+memory_displacements[sorted_file_offsets[i]]; fh->f_num_of_io_entries++; } } #if DEBUG_ON printf("*************************** %d\n", fh->f_num_of_io_entries); for (i=0 ; i<fh->f_num_of_io_entries ; i++) { printf(" ADDRESS: %p OFFSET: %ld LENGTH: %ld\n", fh->f_io_array[i].memory_address, (OPAL_PTRDIFF_TYPE)fh->f_io_array[i].offset, fh->f_io_array[i].length); } #endif #if TIME_BREAKDOWN start_ptime = MPI_Wtime(); #endif if (fh->f_num_of_io_entries) { if (OMPI_SUCCESS != fh->f_fbtl->fbtl_pwritev (fh, NULL)) { opal_output (1, "WRITE FAILED\n"); ret = OMPI_ERROR; goto exit; } } #if TIME_BREAKDOWN end_ptime = MPI_Wtime(); tpw = end_ptime - start_ptime; write_time += tpw; #endif } if (NULL != send_req){ free(send_req); send_req = NULL; } if (fh->f_procs_in_group[fh->f_aggregator_index] == fh->f_rank) { fh->f_num_of_io_entries = 0; if (NULL != fh->f_io_array) { free (fh->f_io_array); fh->f_io_array = NULL; } if (NULL != recvtype){ free(recvtype); recvtype=NULL; } if (NULL != recv_req){ free(recv_req); recv_req = NULL; } if (NULL != global_buf) { free (global_buf); global_buf = NULL; } } } #if TIME_BREAKDOWN end_time2 = MPI_Wtime(); total_io = end_time2-start_time2; fh->f_comm->c_coll.coll_allreduce (&total_io, &max_io, 1, MPI_DOUBLE, MPI_MAX, fh->f_comm, fh->f_comm->c_coll.coll_allreduce_module); fh->f_comm->c_coll.coll_allreduce (&comm_time, &max_comm_time, 1, MPI_DOUBLE, MPI_SUM, fh->f_comm, fh->f_comm->c_coll.coll_allreduce_module); fh->f_comm->c_coll.coll_allreduce (&write_time, &max_write_time, 1, MPI_DOUBLE, MPI_SUM, fh->f_comm, fh->f_comm->c_coll.coll_allreduce_module); if (0 == fh->f_rank){ printf ("Max Exchange and write ---- %f\n", max_io); printf ("AVG pwrite time : %f \n", max_write_time/mca_fcoll_dynamic_num_io_procs); printf ("AVG communication time : %f\n", max_comm_time/fh->f_size); } fh->f_comm->c_coll.coll_allreduce (&comm_time, &max_comm_time, 1, MPI_DOUBLE, MPI_MAX, fh->f_comm, fh->f_comm->c_coll.coll_allreduce_module); fh->f_comm->c_coll.coll_allreduce (&write_time, &max_write_time, 1, MPI_DOUBLE, MPI_MAX, fh->f_comm, fh->f_comm->c_coll.coll_allreduce_module); if (0 == fh->f_rank){ printf ("MAX pwrite time : %f \n", max_write_time); printf ("MAX communication time : %f\n", max_comm_time); } fh->f_comm->c_coll.coll_allreduce (&comm_time, &max_comm_time, 1, MPI_DOUBLE, MPI_MIN, fh->f_comm, fh->f_comm->c_coll.coll_allreduce_module); if (0 == fh->f_rank){ printf ("MIN communication time : %f\n", max_comm_time); } #endif exit : if (fh->f_procs_in_group[fh->f_aggregator_index] == fh->f_rank) { if (NULL != fh->f_io_array) { free (fh->f_io_array); fh->f_io_array = NULL; } if (NULL != disp_index){ free(disp_index); disp_index = NULL; } if (NULL != recvtype){ free(recvtype); recvtype=NULL; } if (NULL != recv_req){ free(recv_req); recv_req = NULL; } if (NULL != global_buf) { free (global_buf); global_buf = NULL; } for(l=0;l<fh->f_procs_per_group;l++){ if (NULL != blocklen_per_process[l]){ free(blocklen_per_process[l]); blocklen_per_process[l] = NULL; } if (NULL != displs_per_process[l]){ free(displs_per_process[l]); displs_per_process[l] = NULL; } } if (NULL != blocklen_per_process){ free(blocklen_per_process); blocklen_per_process = NULL; } if (NULL != displs_per_process){ free(displs_per_process); displs_per_process = NULL; } } if (NULL != sorted) { free (sorted); sorted = NULL; } if (NULL != global_iov_array) { free (global_iov_array); global_iov_array = NULL; } if (NULL != fview_count) { free (fview_count); fview_count = NULL; } if (NULL != decoded_iov) { free (decoded_iov); decoded_iov = NULL; } if (NULL != send_req){ free(send_req); send_req = NULL; } return OMPI_SUCCESS; }
int mca_fcoll_dynamic_file_read_all (mca_io_ompio_file_t *fh, void *buf, int count, struct ompi_datatype_t *datatype, ompi_status_public_t *status) { MPI_Aint position = 0; MPI_Aint total_bytes = 0; /* total bytes to be read */ MPI_Aint bytes_to_read_in_cycle = 0; /* left to be read in a cycle*/ MPI_Aint bytes_per_cycle = 0; /* total read in each cycle by each process*/ int index = 0; int cycles = 0; int i=0, j=0, x=0; int n=0; /* current position in total_bytes_per_process array */ MPI_Aint bytes_remaining = 0; /* how many bytes have been read from the current value from total_bytes_per_process */ int bytes_received = 0; int blocks = 0; /* iovec structure and count of the buffer passed in */ uint32_t iov_count = 0; struct iovec *decoded_iov = NULL; int iov_index = 0; size_t current_position = 0; char *receive_buf = NULL; /* global iovec at the readers that contain the iovecs created from file_set_view */ uint32_t total_fview_count = 0; struct iovec *global_fview = NULL; int local_count = 0; struct iovec *iov = NULL; int *fview_count = NULL; int current_index; char *global_buf = NULL; MPI_Aint global_count = 0; /* array that contains the sorted indices of the global_iov */ int *sorted = NULL; int *displs = NULL; size_t max_data = 0; int *bytes_per_process = NULL; MPI_Aint bytes_left = 0; MPI_Aint *total_bytes_per_process = NULL; if (opal_datatype_is_contiguous_memory_layout(&datatype->super,1)) { fh->f_flags |= OMPIO_CONTIGUOUS_MEMORY; } /************************************************************************** ** In case the data is not contigous in memory, decode it into an iovec ** **************************************************************************/ if (! (fh->f_flags & OMPIO_CONTIGUOUS_MEMORY)) { ompi_io_ompio_decode_datatype (fh, datatype, count, buf, &max_data, &decoded_iov, &iov_count); } else { max_data = count * datatype->super.size; } if (! (fh->f_flags & OMPIO_AGGREGATOR_IS_SET)) { ompi_io_ompio_set_aggregator_props (fh, mca_fcoll_dynamic_num_io_procs, max_data); } total_bytes_per_process = (MPI_Aint*)malloc (fh->f_procs_per_group*sizeof(MPI_Aint)); if (NULL == total_bytes_per_process) { opal_output (1, "OUT OF MEMORY\n"); return OMPI_ERR_OUT_OF_RESOURCE; } ompi_io_ompio_allgather_array (&max_data, 1, MPI_LONG, total_bytes_per_process, 1, MPI_LONG, fh->f_aggregator_index, fh->f_procs_in_group, fh->f_procs_per_group, fh->f_comm); for (i=0 ; i<fh->f_procs_per_group ; i++) { total_bytes += total_bytes_per_process[i]; } if (NULL != total_bytes_per_process) { free (total_bytes_per_process); total_bytes_per_process = NULL; } /* fh->f_comm->c_coll.coll_allreduce (&max_data, &total_bytes, 1, MPI_DOUBLE, MPI_SUM, fh->f_comm, fh->f_comm->c_coll.coll_allreduce_module); */ /********************************************************************* *** Generate the File offsets/lengths corresponding to this write *** ********************************************************************/ ompi_io_ompio_generate_current_file_view (fh, max_data, &iov, &local_count); /* for (i=0 ; i<local_count ; i++) { printf("%d: OFFSET: %p LENGTH: %d\n", fh->f_rank, iov[i].iov_base, iov[i].iov_len); } */ /************************************************************* *** ALLGather the File View information at all processes *** *************************************************************/ fview_count = (int *) malloc (fh->f_procs_per_group * sizeof (int)); if (NULL == fview_count) { opal_output (1, "OUT OF MEMORY\n"); return OMPI_ERR_OUT_OF_RESOURCE; } ompi_io_ompio_allgather_array (&local_count, 1, MPI_INT, fview_count, 1, MPI_INT, fh->f_aggregator_index, fh->f_procs_in_group, fh->f_procs_per_group, fh->f_comm); displs = (int*)malloc (fh->f_procs_per_group*sizeof(int)); if (NULL == displs) { opal_output (1, "OUT OF MEMORY\n"); return OMPI_ERR_OUT_OF_RESOURCE; } displs[0] = 0; total_fview_count = fview_count[0]; for (i=1 ; i<fh->f_procs_per_group ; i++) { total_fview_count += fview_count[i]; displs[i] = displs[i-1] + fview_count[i-1]; } /* if (fh->f_procs_in_group[fh->f_aggregator_index] == fh->f_rank) { for (i=0 ; i<fh->f_procs_per_group ; i++) { printf ("%d: PROCESS: %d ELEMENTS: %d DISPLS: %d\n", fh->f_rank, i, fview_count[i], displs[i]); } } */ /* allocate the global iovec */ if (0 != total_fview_count) { global_fview = (struct iovec*)malloc (total_fview_count * sizeof(struct iovec)); if (NULL == global_fview) { opal_output (1, "OUT OF MEMORY\n"); return OMPI_ERR_OUT_OF_RESOURCE; } } if (fh->f_flags & OMPIO_UNIFORM_FVIEW) { ompi_io_ompio_allgather_array (iov, local_count, fh->f_iov_type, global_fview, local_count, fh->f_iov_type, fh->f_aggregator_index, fh->f_procs_in_group, fh->f_procs_per_group, fh->f_comm); } else { ompi_io_ompio_allgatherv_array (iov, local_count, fh->f_iov_type, global_fview, fview_count, displs, fh->f_iov_type, fh->f_aggregator_index, fh->f_procs_in_group, fh->f_procs_per_group, fh->f_comm); } /* sort it */ if (0 != total_fview_count) { sorted = (int *)malloc (total_fview_count * sizeof(int)); if (NULL == sorted) { opal_output (1, "OUT OF MEMORY\n"); return OMPI_ERR_OUT_OF_RESOURCE; } ompi_io_ompio_sort_iovec (global_fview, total_fview_count, sorted); } if (NULL != iov) { free (iov); iov = NULL; } /* if (fh->f_procs_in_group[fh->f_aggregator_index] == fh->f_rank) { for (i=0 ; i<total_fview_count ; i++) { printf("%d: OFFSET: %p LENGTH: %d\n", fh->f_rank, global_fview[sorted[i]].iov_base, global_fview[sorted[i]].iov_len); } } */ if (fh->f_procs_in_group[fh->f_aggregator_index] == fh->f_rank) { bytes_per_process = (int *)malloc (fh->f_procs_per_group * sizeof (int)); if (NULL == bytes_per_process) { opal_output (1, "OUT OF MEMORY\n"); return OMPI_ERR_OUT_OF_RESOURCE; } } /* * Calculate how many bytes are read in each cycle */ bytes_per_cycle = mca_fcoll_dynamic_cycle_buffer_size; cycles = ceil((double)total_bytes/bytes_per_cycle); n = 0; bytes_remaining = 0; current_index = 0; for (index = 0; index < cycles; index++) { int k; if (fh->f_procs_in_group[fh->f_aggregator_index] == fh->f_rank) { memset(displs, 0x0, fh->f_procs_per_group*sizeof(int)); memset(bytes_per_process, 0x0, fh->f_procs_per_group*sizeof(int)); } if (cycles-1 == index) { bytes_to_read_in_cycle = total_bytes - bytes_per_cycle*index; } else { bytes_to_read_in_cycle = bytes_per_cycle; } /* if (fh->f_procs_in_group[fh->f_aggregator_index] == fh->f_rank) { printf ("****%d: CYCLE %d Bytes %d**********\n", fh->f_rank, index, bytes_to_write_in_cycle); } */ /* Calculate how much data will be contributed in this cycle by each process*/ bytes_received = 0; while (bytes_to_read_in_cycle) { blocks = fview_count[0]; for (j=0 ; j<fh->f_procs_per_group ; j++) { if (sorted[current_index] < blocks) { n = j; break; } else { blocks += fview_count[j+1]; } } if (bytes_remaining) { if (bytes_remaining <= bytes_to_read_in_cycle) { if (fh->f_procs_in_group[fh->f_aggregator_index] == fh->f_rank) { bytes_per_process[n] += bytes_remaining; } if (fh->f_procs_in_group[n] == fh->f_rank) { bytes_received += bytes_remaining; } current_index ++; bytes_to_read_in_cycle -= bytes_remaining; bytes_remaining = 0; continue; } else { if (fh->f_procs_in_group[fh->f_aggregator_index] == fh->f_rank) { bytes_per_process[n] += bytes_to_read_in_cycle; } if (fh->f_procs_in_group[n] == fh->f_rank) { bytes_received += bytes_to_read_in_cycle; } bytes_remaining -= bytes_to_read_in_cycle; bytes_to_read_in_cycle = 0; break; } } else { if (bytes_to_read_in_cycle < (MPI_Aint) global_fview[sorted[current_index]].iov_len) { if (fh->f_procs_in_group[fh->f_aggregator_index] == fh->f_rank) { bytes_per_process[n] += bytes_to_read_in_cycle; } if (fh->f_procs_in_group[n] == fh->f_rank) { bytes_received += bytes_to_read_in_cycle; } bytes_remaining = global_fview[sorted[current_index]].iov_len - bytes_to_read_in_cycle; bytes_to_read_in_cycle = 0; break; } else { if (fh->f_procs_in_group[fh->f_aggregator_index] == fh->f_rank) { bytes_per_process[n] += global_fview[sorted[current_index]].iov_len; } if (fh->f_procs_in_group[n] == fh->f_rank) { bytes_received += global_fview[sorted[current_index]].iov_len; } bytes_to_read_in_cycle -= global_fview[sorted[current_index]].iov_len; current_index ++; continue; } } } /* Calculate the displacement on where to put the data and allocate the recieve buffer (global_buf) */ if (fh->f_procs_in_group[fh->f_aggregator_index] == fh->f_rank) { displs[0] = 0; global_count = bytes_per_process[0]; for (i=1 ; i<fh->f_procs_per_group ; i++) { global_count += bytes_per_process[i]; displs[i] = displs[i-1] + bytes_per_process[i-1]; } /* for (i=0 ; i<fh->f_procs_per_group ; i++) { printf ("Proc %d sending %d at %d\n", i, bytes_per_process[i], displs[i]); } */ global_buf = malloc (global_count); if (NULL == global_buf) { opal_output (1, "OUT OF MEMORY\n"); return OMPI_ERR_OUT_OF_RESOURCE; } } /********************************************************** ******* Create the io array, and pass it to fbtl ********* *********************************************************/ if (fh->f_procs_in_group[fh->f_aggregator_index] == fh->f_rank) { MPI_Aint bytes_to_read = global_count; MPI_Aint *temp = NULL; int block = 1; k = 0; temp = (MPI_Aint *)malloc (sizeof(MPI_Aint) * fh->f_procs_per_group); if (NULL == temp) { opal_output(1, "OUT OF MEMORY\n"); return OMPI_ERR_OUT_OF_RESOURCE; } memset(temp, 0x0, fh->f_procs_per_group*sizeof(MPI_Aint)); fh->f_io_array = (mca_io_ompio_io_array_t *) malloc (OMPIO_IOVEC_INITIAL_SIZE * sizeof (mca_io_ompio_io_array_t)); if (NULL == fh->f_io_array) { opal_output(1, "OUT OF MEMORY\n"); return OMPI_ERR_OUT_OF_RESOURCE; } while (bytes_to_read) { int start = 0; if (OMPIO_IOVEC_INITIAL_SIZE*block <= k) { block ++; fh->f_io_array = (mca_io_ompio_io_array_t *)realloc (fh->f_io_array, OMPIO_IOVEC_INITIAL_SIZE *block * sizeof(mca_io_ompio_io_array_t)); if (NULL == fh->f_io_array) { opal_output(1, "OUT OF MEMORY\n"); return OMPI_ERR_OUT_OF_RESOURCE; } } blocks = fview_count[0]; for (j=0 ; j<fh->f_procs_per_group ; j++) { if (sorted[x] < blocks) { n = j; break; } else { blocks += fview_count[j+1]; } } for (j=0 ; j<n ; j++) { start += bytes_per_process[j]; } if (bytes_left) { if (bytes_left <= bytes_to_read) { fh->f_io_array[k].offset = (IOVBASE_TYPE *) ((OPAL_PTRDIFF_TYPE)global_fview[sorted[x]].iov_base + (global_fview[sorted[x]].iov_len - bytes_left)); fh->f_io_array[k].length = bytes_left; fh->f_io_array[k].memory_address = &global_buf[start+temp[n]]; temp[n] += fh->f_io_array[k].length; bytes_to_read -= bytes_left; bytes_left = 0; k ++; x ++; continue; } else { fh->f_io_array[k].offset = (IOVBASE_TYPE *) ((OPAL_PTRDIFF_TYPE)global_fview[sorted[x]].iov_base + (global_fview[sorted[x]].iov_len - bytes_left)); fh->f_io_array[k].length = bytes_to_read; fh->f_io_array[k].memory_address = &global_buf[start+temp[n]]; temp[n] += fh->f_io_array[k].length; bytes_left -= bytes_to_read; bytes_to_read = 0;; k ++; break; } } else { if (bytes_to_read < (MPI_Aint) global_fview[sorted[x]].iov_len) { fh->f_io_array[k].offset = global_fview[sorted[x]].iov_base; fh->f_io_array[k].length = bytes_to_read; fh->f_io_array[k].memory_address = &global_buf[start+temp[n]]; bytes_left = global_fview[sorted[x]].iov_len - bytes_to_read; bytes_to_read = 0; k ++; break; } else { fh->f_io_array[k].offset = global_fview[sorted[x]].iov_base; fh->f_io_array[k].length = global_fview[sorted[x]].iov_len; fh->f_io_array[k].memory_address = &global_buf[start+temp[n]]; temp[n] += fh->f_io_array[k].length; bytes_to_read -= global_fview[sorted[x]].iov_len; k ++; x ++; continue; } } } fh->f_num_of_io_entries = k; /* printf("*************************** %d\n", fh->f_num_of_io_entries); for (i=0 ; i<fh->f_num_of_io_entries ; i++) { printf(" ADDRESS: %p OFFSET: %p LENGTH: %d\n", fh->f_io_array[i].memory_address, fh->f_io_array[i].offset, fh->f_io_array[i].length); } */ if (fh->f_num_of_io_entries) { if (OMPI_SUCCESS != fh->f_fbtl->fbtl_preadv (fh, NULL)) { opal_output (1, "READ FAILED\n"); return OMPI_ERROR; } } if (NULL != temp) { free (temp); temp = NULL; } } /********************************************************** ******************** DONE READING ************************ *********************************************************/ /********************************************************** ********* Scatter the Data from the readers ************** *********************************************************/ if (fh->f_flags & OMPIO_CONTIGUOUS_MEMORY) { receive_buf = &((char*)buf)[position]; } else if (bytes_received) { /* allocate a receive buffer and copy the data that needs to be received into it in case the data is non-contigous in memory */ receive_buf = malloc (bytes_received); if (NULL == receive_buf) { opal_output (1, "OUT OF MEMORY\n"); return OMPI_ERR_OUT_OF_RESOURCE; } } ompi_io_ompio_scatterv_array (global_buf, bytes_per_process, displs, MPI_BYTE, receive_buf, bytes_received, MPI_BYTE, fh->f_aggregator_index, fh->f_procs_in_group, fh->f_procs_per_group, fh->f_comm); position += bytes_received; /* If data is not contigous in memory, copy the data from the receive buffer into the buffer passed in */ if (!(fh->f_flags & OMPIO_CONTIGUOUS_MEMORY)) { OPAL_PTRDIFF_TYPE mem_address; size_t remaining = 0; size_t temp_position = 0; remaining = bytes_received; while (remaining) { mem_address = (OPAL_PTRDIFF_TYPE) (decoded_iov[iov_index].iov_base) + current_position; if (remaining >= (decoded_iov[iov_index].iov_len - current_position)) { memcpy ((IOVBASE_TYPE *) mem_address, receive_buf+temp_position, decoded_iov[iov_index].iov_len - current_position); remaining = remaining - (decoded_iov[iov_index].iov_len - current_position); temp_position = temp_position + (decoded_iov[iov_index].iov_len - current_position); iov_index = iov_index + 1; current_position = 0; } else { memcpy ((IOVBASE_TYPE *) mem_address, receive_buf+temp_position, remaining); current_position = current_position + remaining; remaining = 0; } } if (NULL != receive_buf) { free (receive_buf); receive_buf = NULL; } } /********************************************************** **************** DONE SCATTERING OF DATA ***************** *********************************************************/ if (fh->f_procs_in_group[fh->f_aggregator_index] == fh->f_rank) { fh->f_num_of_io_entries = 0; if (NULL != fh->f_io_array) { free (fh->f_io_array); fh->f_io_array = NULL; } if (NULL != global_buf) { free (global_buf); global_buf = NULL; } } } if (NULL != sorted) { free (sorted); sorted = NULL; } if (NULL != global_fview) { free (global_fview); global_fview = NULL; } if (NULL != fview_count) { free (fview_count); fview_count = NULL; } if (NULL != decoded_iov) { free (decoded_iov); decoded_iov = NULL; } if (NULL != bytes_per_process) { free (bytes_per_process); bytes_per_process = NULL; } if (NULL != displs) { free (displs); displs = NULL; } return OMPI_SUCCESS; }