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hdf5/hl/test/dectris_hl_perf.c
Larry Knox 89fbe00dec Merge pull request #426 in HDFFV/hdf5 from ~LRKNOX/hdf5_lrk:hdf5_1_10 to hdf5_1_10 
* commit '54957d37f5aa73912763dbb6e308555e863c43f4':
  Commit copyright header change for src/H5PLpkg.c which was added after running script to make changes.
  Add new files in release_docs to MANIFEST. Cimmit changes to Makefile.in(s) and H5PL.c that resulted from running autogen.sh.
  Merge pull request #407 in HDFFV/hdf5 from ~LRKNOX/hdf5_lrk:hdf5_1_10_1 to hdf5_1_10_1
  Change copyright headers to replace url referring to file to be removed and replace it with new url for COPYING file.
2017-04-25 16:05:36 -05:00

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/* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * *
* Copyright by The HDF Group. *
* Copyright by the Board of Trustees of the University of Illinois. *
* All rights reserved. *
* *
* This file is part of HDF5. The full HDF5 copyright notice, including *
* terms governing use, modification, and redistribution, is contained in *
* the COPYING file, which can be found at the root of the source code *
* distribution tree, or in https://support.hdfgroup.org/ftp/HDF5/releases. *
* If you do not have access to either file, you may request a copy from *
* help@hdfgroup.org. *
* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */
/*
* This test is for the DECTRIS project to the H5DOwrite_chunk function
*
*/
#include "hdf5_hl.h"
#ifdef H5_HAVE_FILTER_DEFLATE
#include <zlib.h>
#if !defined(WIN32) && !defined(__MINGW32__)
#include <math.h>
#ifdef H5_STDC_HEADERS
# include <errno.h>
# include <fcntl.h>
# include <stdio.h>
# include <stdlib.h>
#endif
#ifdef H5_HAVE_UNISTD_H
# include <sys/types.h>
# include <unistd.h>
#endif
#ifdef H5_HAVE_SYS_STAT_H
# include <sys/stat.h>
#endif
#if defined(H5_TIME_WITH_SYS_TIME)
# include <sys/time.h>
# include <time.h>
#elif defined(H5_HAVE_SYS_TIME_H)
# include <sys/time.h>
#else
# include <time.h>
#endif
const char *FILENAME[] = {
"dectris_perf",
"unix.raw",
NULL
};
/*
* Print the current location on the standard output stream.
*/
#define FUNC __func__
#define AT() printf (" at %s:%d in %s()...\n", \
__FILE__, __LINE__, FUNC);
#define H5_FAILED() {puts("*FAILED*");fflush(stdout);}
#define TEST_ERROR {H5_FAILED(); AT(); goto error;}
#define TESTING(WHAT) {printf("Testing %-62s",WHAT); fflush(stdout);}
#define PASSED() {puts(" PASSED");fflush(stdout);}
#define DIRECT_UNCOMPRESSED_DSET "direct_uncompressed_dset"
#define DIRECT_COMPRESSED_DSET "direct_compressed_dset"
#define REG_COMPRESSED_DSET "reg_compressed_dset"
#define REG_NO_COMPRESS_DSET "reg_no_compress_dset"
#define RANK 3
#define NX 100
#define NY 1000
#define NZ 250
#define CHUNK_NX 1
#define CHUNK_NY 1000
#define CHUNK_NZ 250
#define DEFLATE_SIZE_ADJUST(s) (ceil(((double)(s))*1.001)+12)
char filename[1024];
unsigned int *outbuf[NX];
size_t data_size[NX];
double total_size = 0.0;
unsigned int *direct_buf[NX];
double MB = 1048576.0;
/*--------------------------------------------------
* Function to report IO rate
*--------------------------------------------------
*/
void reportTime(struct timeval start, double mbytes)
{
struct timeval timeval_stop,timeval_diff;
/*end timing*/
gettimeofday(&timeval_stop,NULL);
/* Calculate the elapsed gettimeofday time */
timeval_diff.tv_usec=timeval_stop.tv_usec-start.tv_usec;
timeval_diff.tv_sec=timeval_stop.tv_sec-start.tv_sec;
if(timeval_diff.tv_usec<0) {
timeval_diff.tv_usec+=1000000;
timeval_diff.tv_sec--;
} /* end if */
/*printf("mbytes=%lf, sec=%lf, usec=%lf\n", mbytes, (double)timeval_diff.tv_sec, (double)timeval_diff.tv_usec);*/
printf("MBytes/second: %lf\n", (double)mbytes/((double)timeval_diff.tv_sec+((double)timeval_diff.tv_usec/(double)1000000.0)));
}
/*--------------------------------------------------
* Create file, datasets, and initialize data
*--------------------------------------------------
*/
int create_file(hid_t fapl_id)
{
hid_t file; /* handles */
hid_t fapl;
hid_t cparms;
hid_t dataspace, dataset;
hsize_t dims[RANK] = {NX, NY, NZ};
hsize_t chunk_dims[RANK] ={CHUNK_NX, CHUNK_NY, CHUNK_NZ};
unsigned int aggression = 9; /* Compression aggression setting */
int ret;
int i, j, n;
int flag;
int unix_file;
unsigned int *p;
size_t buf_size = CHUNK_NY*CHUNK_NZ*sizeof(unsigned int);
const Bytef *z_src;
Bytef *z_dst; /*destination buffer */
uLongf z_dst_nbytes = (uLongf)DEFLATE_SIZE_ADJUST(buf_size);
uLong z_src_nbytes = (uLong)buf_size;
TESTING("Create a file and dataset");
/*
* Create the data space with unlimited dimensions.
*/
if((dataspace = H5Screate_simple(RANK, dims, NULL)) < 0)
TEST_ERROR;
/*
* Create a new file. If file exists its contents will be overwritten.
*/
if((file = H5Fcreate(filename, H5F_ACC_TRUNC, H5P_DEFAULT, fapl_id)) < 0)
TEST_ERROR;
/*
* Modify dataset creation properties, i.e. enable chunking and compression
*/
if((cparms = H5Pcreate(H5P_DATASET_CREATE)) < 0)
TEST_ERROR;
if(H5Pset_chunk( cparms, RANK, chunk_dims) < 0)
TEST_ERROR;
/*
* Create a new dataset within the file using cparms
* creation properties.
*/
if((dataset = H5Dcreate2(file, DIRECT_UNCOMPRESSED_DSET, H5T_NATIVE_INT, dataspace, H5P_DEFAULT,
cparms, H5P_DEFAULT)) < 0)
TEST_ERROR;
if(H5Dclose(dataset) < 0)
TEST_ERROR;
if((dataset = H5Dcreate2(file, REG_NO_COMPRESS_DSET, H5T_NATIVE_INT, dataspace, H5P_DEFAULT,
cparms, H5P_DEFAULT)) < 0)
TEST_ERROR;
if(H5Dclose(dataset) < 0)
TEST_ERROR;
/* Set compression */
if(H5Pset_deflate( cparms, aggression) < 0)
TEST_ERROR;
if((dataset = H5Dcreate2(file, DIRECT_COMPRESSED_DSET, H5T_NATIVE_INT, dataspace, H5P_DEFAULT,
cparms, H5P_DEFAULT)) < 0)
TEST_ERROR;
if(H5Dclose(dataset) < 0)
TEST_ERROR;
if((dataset = H5Dcreate2(file, REG_COMPRESSED_DSET, H5T_NATIVE_INT, dataspace, H5P_DEFAULT,
cparms, H5P_DEFAULT)) < 0)
TEST_ERROR;
if(H5Dclose(dataset) < 0)
TEST_ERROR;
if(H5Fclose(file) < 0)
TEST_ERROR;
if(H5Sclose(dataspace) < 0)
TEST_ERROR;
if(H5Pclose(cparms) < 0)
TEST_ERROR;
/* create a unix file*/
flag = O_CREAT|O_TRUNC|O_WRONLY;
if ((unix_file=open(FILENAME[1],flag,S_IRWXU))== -1)
TEST_ERROR;
if (close(unix_file) < 0)
{
printf(" unable to close the file\n");
TEST_ERROR;
}
/* Initialize data for chunks */
for(i = 0; i < NX; i++) {
p = direct_buf[i] = (unsigned int*)malloc(CHUNK_NY*CHUNK_NZ*sizeof(unsigned int));
for(j=0; j < CHUNK_NY*CHUNK_NZ; j++, p++)
*p = rand() % 65000;
z_src = (const Bytef*)direct_buf[i];
z_dst_nbytes = (uLongf)DEFLATE_SIZE_ADJUST(buf_size);
/* Allocate output (compressed) buffer */
outbuf[i] = (unsigned int*)malloc((size_t)z_dst_nbytes);
z_dst = (Bytef *)outbuf[i];
/* Perform compression from the source to the destination buffer */
ret = compress2(z_dst, &z_dst_nbytes, z_src, z_src_nbytes, aggression);
data_size[i] = (size_t)z_dst_nbytes;
total_size += data_size[i];
/* Check for various zlib errors */
if(Z_BUF_ERROR == ret) {
fprintf(stderr, "overflow");
TEST_ERROR;
} else if(Z_MEM_ERROR == ret) {
fprintf(stderr, "deflate memory error");
TEST_ERROR;
} else if(Z_OK != ret) {
fprintf(stderr, "other deflate error");
TEST_ERROR;
}
}
PASSED();
error:
H5E_BEGIN_TRY {
H5Dclose(dataset);
H5Sclose(dataspace);
H5Pclose(cparms);
H5Fclose(file);
} H5E_END_TRY;
return 1;
}
/*--------------------------------------------------
* Benchmark the performance of the new function
* with precompressed data.
*--------------------------------------------------
*/
int
test_direct_write_uncompressed_data(hid_t fapl_id)
{
hid_t file; /* handles */
hid_t dataspace, dataset;
hid_t dxpl;
herr_t status;
int i;
unsigned filter_mask = 0;
hsize_t offset[RANK] = {0, 0, 0};
struct timeval timeval_start;
TESTING("H5DOwrite_chunk for uncompressed data");
if((dxpl = H5Pcreate(H5P_DATASET_XFER)) < 0)
TEST_ERROR;
/* Start the timer */
gettimeofday(&timeval_start,NULL);
/* Reopen the file and dataset */
if((file = H5Fopen(filename, H5F_ACC_RDWR, fapl_id)) < 0)
TEST_ERROR;
if((dataset = H5Dopen2(file, DIRECT_UNCOMPRESSED_DSET, H5P_DEFAULT)) < 0)
TEST_ERROR;
/* Write the compressed chunk data repeatedly to cover all the chunks in the
* dataset, using the direct writing function. */
for(i=0; i<NX; i++) {
status = H5DOwrite_chunk(dataset, dxpl, filter_mask, offset, CHUNK_NY*CHUNK_NZ*sizeof(unsigned int), direct_buf[i]);
(offset[0])++;
}
/*
* Close/release resources.
*/
H5Dclose(dataset);
H5Pclose(dxpl);
H5Fclose(file);
/* Report the performance */
reportTime(timeval_start, (double)(NX*NY*NZ*sizeof(unsigned int)/MB));
PASSED();
return 0;
error:
H5E_BEGIN_TRY {
H5Dclose(dataset);
H5Pclose(dxpl);
H5Fclose(file);
} H5E_END_TRY;
return 1;
}
/*--------------------------------------------------
* Benchmark the performance of the new function
* with precompressed data.
*--------------------------------------------------
*/
int
test_direct_write_compressed_data(hid_t fapl_id)
{
hid_t file; /* handles */
hid_t dataspace, dataset;
hid_t dxpl;
herr_t status;
int i;
unsigned filter_mask = 0;
hsize_t offset[RANK] = {0, 0, 0};
struct timeval timeval_start;
TESTING("H5DOwrite_chunk for pre-compressed data");
if((dxpl = H5Pcreate(H5P_DATASET_XFER)) < 0)
TEST_ERROR;
/* Start the timer */
gettimeofday(&timeval_start,NULL);
/* Reopen the file and dataset */
if((file = H5Fopen(filename, H5F_ACC_RDWR, fapl_id)) < 0)
TEST_ERROR;
if((dataset = H5Dopen2(file, DIRECT_COMPRESSED_DSET, H5P_DEFAULT)) < 0)
TEST_ERROR;
/* Write the compressed chunk data repeatedly to cover all the chunks in the
* dataset, using the direct writing function. */
for(i=0; i<NX; i++) {
status = H5DOwrite_chunk(dataset, dxpl, filter_mask, offset, data_size[i], outbuf[i]);
(offset[0])++;
}
/*
* Close/release resources.
*/
H5Dclose(dataset);
H5Pclose(dxpl);
H5Fclose(file);
/* Report the performance */
reportTime(timeval_start, (double)(total_size/MB));
PASSED();
return 0;
error:
H5E_BEGIN_TRY {
H5Dclose(dataset);
H5Pclose(dxpl);
H5Fclose(file);
} H5E_END_TRY;
return 1;
}
/*--------------------------------------------------
* Benchmark the performance of the regular H5Dwrite
* with compression filter enabled.
*--------------------------------------------------
*/
int
test_compressed_write(hid_t fapl_id)
{
hid_t file; /* handles */
hid_t dataspace, dataset;
hid_t mem_space;
hsize_t chunk_dims[RANK] ={CHUNK_NX, CHUNK_NY, CHUNK_NZ};
hid_t dxpl;
herr_t status;
int i;
hsize_t start[RANK]; /* Start of hyperslab */
hsize_t stride[RANK]; /* Stride of hyperslab */
hsize_t count[RANK]; /* Block count */
hsize_t block[RANK]; /* Block sizes */
struct timeval timeval_start;
TESTING("H5Dwrite with compression enabled");
if((dxpl = H5Pcreate(H5P_DATASET_XFER)) < 0)
TEST_ERROR;
if((mem_space = H5Screate_simple(RANK, chunk_dims, NULL)) < 0)
TEST_ERROR;
/* Start the timer */
gettimeofday(&timeval_start,NULL);
/* Reopen the file and dataset */
if((file = H5Fopen(filename, H5F_ACC_RDWR, fapl_id)) < 0)
TEST_ERROR;
if((dataset = H5Dopen2(file, REG_COMPRESSED_DSET, H5P_DEFAULT)) < 0)
TEST_ERROR;
if((dataspace = H5Dget_space(dataset)) < 0)
TEST_ERROR;
start[0] = start[1] = start[2] = 0;
stride[0] = stride[1] = stride[2] = 1;
count[0] = count[1] = count[2] = 1;
block[0] = CHUNK_NX; block[1] = CHUNK_NY; block[2] = CHUNK_NZ;
for(i=0; i<NX; i++) {
/*
* Select hyperslab for one chunk in the file
*/
if((status = H5Sselect_hyperslab(dataspace, H5S_SELECT_SET, start, stride, count, block)) < 0)
TEST_ERROR;
(start[0])++;
if((status = H5Dwrite(dataset, H5T_NATIVE_INT, mem_space, dataspace,
H5P_DEFAULT, direct_buf[i])) < 0)
TEST_ERROR;
}
/*
* Close/release resources.
*/
H5Dclose(dataset);
H5Sclose(dataspace);
H5Sclose(mem_space);
H5Pclose(dxpl);
H5Fclose(file);
/* Report the performance */
reportTime(timeval_start, (double)(NX*NY*NZ*sizeof(unsigned int)/MB));
PASSED();
return 0;
error:
H5E_BEGIN_TRY {
H5Dclose(dataset);
H5Sclose(dataspace);
H5Sclose(mem_space);
H5Pclose(dxpl);
H5Fclose(file);
} H5E_END_TRY;
return 1;
}
/*--------------------------------------------------
* Benchmark the performance of the regular H5Dwrite
* with compression
*--------------------------------------------------
*/
int
test_no_compress_write(hid_t fapl_id)
{
hid_t file; /* handles */
hid_t dataspace, dataset;
hid_t mem_space;
hsize_t chunk_dims[RANK] ={CHUNK_NX, CHUNK_NY, CHUNK_NZ};
hid_t dxpl;
herr_t status;
int i;
hsize_t start[RANK]; /* Start of hyperslab */
hsize_t stride[RANK]; /* Stride of hyperslab */
hsize_t count[RANK]; /* Block count */
hsize_t block[RANK]; /* Block sizes */
struct timeval timeval_start;
TESTING("H5Dwrite without compression");
if((dxpl = H5Pcreate(H5P_DATASET_XFER)) < 0)
TEST_ERROR;
if((mem_space = H5Screate_simple(RANK, chunk_dims, NULL)) < 0)
TEST_ERROR;
/* Start the timer */
gettimeofday(&timeval_start,NULL);
/* Reopen the file and dataset */
if((file = H5Fopen(filename, H5F_ACC_RDWR, fapl_id)) < 0)
TEST_ERROR;
if((dataset = H5Dopen2(file, REG_NO_COMPRESS_DSET, H5P_DEFAULT)) < 0)
TEST_ERROR;
if((dataspace = H5Dget_space(dataset)) < 0)
TEST_ERROR;
start[0] = start[1] = start[2] = 0;
stride[0] = stride[1] = stride[2] = 1;
count[0] = count[1] = count[2] = 1;
block[0] = CHUNK_NX; block[1] = CHUNK_NY; block[2] = CHUNK_NZ;
for(i=0; i<NX; i++) {
/*
* Select hyperslab for one chunk in the file
*/
if((status = H5Sselect_hyperslab(dataspace, H5S_SELECT_SET, start, stride, count, block)) < 0)
TEST_ERROR;
(start[0])++;
if((status = H5Dwrite(dataset, H5T_NATIVE_INT, mem_space, dataspace,
H5P_DEFAULT, direct_buf[i])) < 0)
TEST_ERROR;
}
/*
* Close/release resources.
*/
H5Dclose(dataset);
H5Sclose(dataspace);
H5Sclose(mem_space);
H5Pclose(dxpl);
H5Fclose(file);
/* Report the performance */
reportTime(timeval_start, (double)(NX*NY*NZ*sizeof(unsigned int)/MB));
PASSED();
return 0;
error:
H5E_BEGIN_TRY {
H5Dclose(dataset);
H5Sclose(dataspace);
H5Sclose(mem_space);
H5Pclose(dxpl);
H5Fclose(file);
} H5E_END_TRY;
return 1;
}
/*--------------------------------------------------
* Benchmark the performance for writing compressed
* data to a Unix file
*--------------------------------------------------
*/
int
test_unix_write(void)
{
int file, flag;
ssize_t op_size;
int i;
struct timeval timeval_start;
TESTING("Write compressed data to a Unix file");
/* create file*/
flag = O_WRONLY;
/* Start the timer */
gettimeofday(&timeval_start,NULL);
if ((file=open(FILENAME[1],flag))== -1)
TEST_ERROR;
/* Write the compressed chunk data repeatedly to cover all the chunks in the
* dataset, using the direct writing function. */
for(i=0; i<NX; i++) {
op_size = write(file, outbuf[i],data_size[i]);
if (op_size < 0)
{
printf(" Error in writing data to file because %s \n", strerror(errno));
TEST_ERROR;
}
else if (op_size == 0)
{
printf(" unable to write sufficent data to file because %s \n", strerror(errno));
TEST_ERROR;
}
}
if (close(file) < 0)
{
printf(" unable to close the file\n");
TEST_ERROR;
}
/* Report the performance */
reportTime(timeval_start, (double)(total_size/MB));
PASSED();
return 0;
error:
return 1;
}
/*--------------------------------------------------
* Main function
*--------------------------------------------------
*/
int
main (void)
{
hid_t fapl = H5P_DEFAULT;
int i;
/* Testing setup */
/* h5_reset();
fapl = h5_fileaccess();
h5_fixname(FILENAME[0], fapl, filename, sizeof filename);*/
sprintf(filename, "%s.h5", FILENAME[0]);
create_file(fapl);
test_direct_write_uncompressed_data(fapl);
test_direct_write_compressed_data(fapl);
test_no_compress_write(fapl);
test_compressed_write(fapl);
test_unix_write();
for(i=0; i<NX; i++) {
free(outbuf[i]);
free(direct_buf[i]);
}
/* h5_cleanup(FILENAME, fapl);*/
return 0;
}
#else /* WIN32 / MINGW32 */
int
main(void)
{
printf("Non-POSIX platform. Exiting.\n");
return EXIT_FAILURE;
} /* end main() */
#endif /* WIN32 / MINGW32 */
#else /* !H5_HAVE_FILTER_DEFLATE */
/*
* Function: main
* Purpose: Dummy main() function for if HDF5 was configured without
* zlib stuff.
* Return: EXIT_SUCCESS
*/
int
main(void)
{
HDfprintf(stdout, "No compression IO performance because zlib was not configured\n");
return EXIT_SUCCESS;
}
#endif /* !H5_HAVE_FILTER_DEFLATE */
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