mirror of
https://github.com/HDFGroup/hdf5.git
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427ff7da28
Bug Fix/Code Cleanup/Doc Cleanup/Optimization/Branch Sync :-)
Description:
Generally speaking, this is the "signed->unsigned" change to selections.
However, in the process of merging code back, things got stickier and stickier
until I ended up doing a big "sync the two branches up" operation. So... I
brought back all the "infrastructure" fixes from the development branch to the
release branch (which I think were actually making some improvement in
performance) as well as fixed several bugs which had been fixed in one branch,
but not the other.
I've also tagged the repository before making this checkin with the label
"before_signed_unsigned_changes".
Platforms tested:
FreeBSD 4.10 (sleipnir) w/parallel & fphdf5
FreeBSD 4.10 (sleipnir) w/threadsafe
FreeBSD 4.10 (sleipnir) w/backward compatibility
Solaris 2.7 (arabica) w/"purify options"
Solaris 2.8 (sol) w/FORTRAN & C++
AIX 5.x (copper) w/parallel & FORTRAN
IRIX64 6.5 (modi4) w/FORTRAN
Linux 2.4 (heping) w/FORTRAN & C++
Misc. update:
552 lines
16 KiB
C
552 lines
16 KiB
C
/* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * *
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* Copyright by the Board of Trustees of the University of Illinois. *
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* All rights reserved. *
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* *
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* This file is part of HDF5. The full HDF5 copyright notice, including *
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* terms governing use, modification, and redistribution, is contained in *
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* the files COPYING and Copyright.html. COPYING can be found at the root *
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* of the source code distribution tree; Copyright.html can be found at the *
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* root level of an installed copy of the electronic HDF5 document set and *
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* is linked from the top-level documents page. It can also be found at *
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* http://hdf.ncsa.uiuc.edu/HDF5/doc/Copyright.html. If you do not have *
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* access to either file, you may request a copy from hdfhelp@ncsa.uiuc.edu. *
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* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */
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/*
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* Programmer: Robb Matzke <robb@arborea.spizella.com>
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* Thursday, May 14, 1998
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*
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* Purpose: Checks the effect of various I/O request sizes and raw data
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* cache sizes. Performance depends on the amount of data read
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* from disk and we use a filter to get that number.
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*/
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/* See H5private.h for how to include headers */
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#undef NDEBUG
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#include "hdf5.h"
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#ifdef H5_STDC_HEADERS
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# include <assert.h>
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# include <stdio.h>
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# include <stdlib.h>
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# include <string.h>
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#endif
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#if !defined(H5_HAVE_ATTRIBUTE) || defined __cplusplus
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# undef __attribute__
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# define __attribute__(X) /*void*/
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# define UNUSED /*void*/
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#else
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# define UNUSED __attribute__((unused))
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#endif
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#define FILE_NAME "chunk.h5"
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#define LINESPOINTS "lines"
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#define CH_SIZE 100 /*squared in terms of bytes */
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#define DS_SIZE 20 /*squared in terms of chunks */
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#define FILTER_COUNTER 305
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#define READ 0
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#define WRITE 1
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#define MIN(X,Y) ((X)<(Y)?(X):(Y))
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#define MAX(X,Y) ((X)>(Y)?(X):(Y))
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#define SQUARE(X) ((X)*(X))
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/* The row-major test */
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#define RM_CACHE_STRT 25
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#define RM_CACHE_END 25
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#define RM_CACHE_DELT 5
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#define RM_START 0.50
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#define RM_END 5.00
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#define RM_DELTA 0.50
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#define RM_W0 0.0
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#define RM_NRDCC 521
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/* Diagonal test */
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#define DIAG_CACHE_STRT 25
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#define DIAG_CACHE_END 25
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#define DIAG_CACHE_DELT 5
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#define DIAG_START 0.50
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#define DIAG_END 5.00
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#define DIAG_DELTA 0.50
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/* #define DIAG_W0 0.65 */
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/* #define DIAG_NRDCC 521 */
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static size_t nio_g;
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static hid_t fapl_g = -1;
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/* Local function prototypes */
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static size_t
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counter (unsigned UNUSED flags, size_t cd_nelmts,
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const unsigned *cd_values, size_t nbytes,
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size_t *buf_size, void **buf);
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/* This message derives from H5Z */
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const H5Z_class_t H5Z_COUNTER[1] = {{
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H5Z_CLASS_T_VERS, /* H5Z_class_t version */
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FILTER_COUNTER, /* Filter id number */
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1, 1, /* Encoding and decoding enabled */
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"counter", /* Filter name for debugging */
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NULL, /* The "can apply" callback */
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NULL, /* The "set local" callback */
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counter, /* The actual filter function */
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}};
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/*-------------------------------------------------------------------------
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* Function: counter
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*
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* Purpose: Count number of bytes but don't do anything.
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*
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* Return: Success: src_nbytes-1
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*
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* Failure: never fails
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*
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* Programmer: Robb Matzke
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* Thursday, May 14, 1998
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*
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* Modifications:
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*
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*-------------------------------------------------------------------------
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*/
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static size_t
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counter (unsigned UNUSED flags, size_t UNUSED cd_nelmts,
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const unsigned UNUSED *cd_values, size_t nbytes,
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size_t UNUSED *buf_size, void UNUSED **buf)
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{
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nio_g += nbytes;
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return nbytes;
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}
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/*-------------------------------------------------------------------------
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* Function: create_dataset
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*
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* Purpose: Creates a square dataset with square chunks, registers a
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* stupid compress/uncompress pair for counting I/O, and
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* initializes the dataset. The chunk size is in bytes, the
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* dataset size is in terms of chunks.
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*
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* Return: void
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*
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* Programmer: Robb Matzke
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* Thursday, May 14, 1998
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*
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* Modifications:
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*
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*-------------------------------------------------------------------------
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*/
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static void
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create_dataset (void)
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{
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hid_t file, space, dcpl, dset;
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hsize_t size[2];
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signed char *buf;
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/* The file */
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file = H5Fcreate (FILE_NAME, H5F_ACC_TRUNC, H5P_DEFAULT, fapl_g);
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/* The data space */
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size[0] = size[1] = DS_SIZE * CH_SIZE;
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space = H5Screate_simple (2, size, size);
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/* The storage layout and compression */
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dcpl = H5Pcreate (H5P_DATASET_CREATE);
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size[0] = size[1] = CH_SIZE;
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H5Pset_chunk (dcpl, 2, size);
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H5Zregister (H5Z_COUNTER);
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H5Pset_filter (dcpl, FILTER_COUNTER, 0, 0, NULL);
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/* The dataset */
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dset = H5Dcreate (file, "dset", H5T_NATIVE_SCHAR, space, dcpl);
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assert (dset>=0);
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/* The data */
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buf = calloc (1, SQUARE (DS_SIZE*CH_SIZE));
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H5Dwrite (dset, H5T_NATIVE_SCHAR, H5S_ALL, H5S_ALL, H5P_DEFAULT, buf);
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free (buf);
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/* Close */
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H5Dclose (dset);
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H5Sclose (space);
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H5Pclose (dcpl);
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H5Fclose (file);
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}
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/*-------------------------------------------------------------------------
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* Function: test_rowmaj
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*
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* Purpose: Reads the entire dataset using the specified size-squared
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* I/O requests in row major order.
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*
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* Return: Efficiency: data requested divided by data actually read.
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*
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* Programmer: Robb Matzke
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* Thursday, May 14, 1998
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*
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* Modifications:
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*
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*-------------------------------------------------------------------------
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*/
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static double
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test_rowmaj (int op, size_t cache_size, size_t io_size)
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{
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hid_t file, dset, mem_space, file_space;
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signed char *buf = calloc (1, (size_t)(SQUARE(io_size)));
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hsize_t i, j, hs_size[2];
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hsize_t hs_offset[2];
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int mdc_nelmts;
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size_t rdcc_nelmts;
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double w0;
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H5Pget_cache (fapl_g, &mdc_nelmts, &rdcc_nelmts, NULL, &w0);
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#ifdef RM_W0
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w0 = RM_W0;
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#endif
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#ifdef RM_NRDCC
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rdcc_nelmts = RM_NRDCC;
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#endif
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H5Pset_cache (fapl_g, mdc_nelmts, rdcc_nelmts,
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cache_size*SQUARE (CH_SIZE), w0);
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file = H5Fopen (FILE_NAME, H5F_ACC_RDWR, fapl_g);
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dset = H5Dopen (file, "dset");
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file_space = H5Dget_space (dset);
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nio_g = 0;
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for (i=0; i<CH_SIZE*DS_SIZE; i+=io_size) {
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#if 0
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fprintf (stderr, "%5d\b\b\b\b\b", (int)i);
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fflush (stderr);
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#endif
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for (j=0; j<CH_SIZE*DS_SIZE; j+=io_size) {
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hs_offset[0] = i;
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hs_size[0] = MIN (io_size, CH_SIZE*DS_SIZE-i);
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hs_offset[1] = j;
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hs_size[1] = MIN (io_size, CH_SIZE*DS_SIZE-j);
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mem_space = H5Screate_simple (2, hs_size, hs_size);
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H5Sselect_hyperslab (file_space, H5S_SELECT_SET, hs_offset,
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NULL, hs_size, NULL);
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if (READ==op) {
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H5Dread (dset, H5T_NATIVE_SCHAR, mem_space, file_space,
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H5P_DEFAULT, buf);
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} else {
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H5Dwrite (dset, H5T_NATIVE_SCHAR, mem_space, file_space,
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H5P_DEFAULT, buf);
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}
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H5Sclose (mem_space);
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}
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}
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free (buf);
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H5Sclose (file_space);
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H5Dclose (dset);
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H5Fclose (file);
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return (double)SQUARE(CH_SIZE*DS_SIZE)/(double)nio_g;
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}
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/*-------------------------------------------------------------------------
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* Function: test_diag
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*
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* Purpose: Reads windows diagonally across the dataset. Each window is
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* offset from the previous window by OFFSET in the x and y
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* directions. The reading ends after the (k,k) value is read
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* where k is the maximum index in the dataset.
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*
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* Return: Efficiency.
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*
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* Programmer: Robb Matzke
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* Friday, May 15, 1998
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*
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* Modifications:
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*
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*-------------------------------------------------------------------------
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*/
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static double
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test_diag (int op, size_t cache_size, size_t io_size, size_t offset)
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{
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hid_t file, dset, mem_space, file_space;
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hsize_t i, hs_size[2];
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hsize_t nio = 0;
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hsize_t hs_offset[2];
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signed char *buf = calloc (1, (size_t)(SQUARE (io_size)));
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int mdc_nelmts;
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size_t rdcc_nelmts;
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double w0;
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H5Pget_cache (fapl_g, &mdc_nelmts, &rdcc_nelmts, NULL, &w0);
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#ifdef DIAG_W0
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w0 = DIAG_W0;
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#endif
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#ifdef DIAG_NRDCC
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rdcc_nelmts = DIAG_NRDCC;
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#endif
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H5Pset_cache (fapl_g, mdc_nelmts, rdcc_nelmts,
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cache_size*SQUARE (CH_SIZE), w0);
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file = H5Fopen (FILE_NAME, H5F_ACC_RDWR, fapl_g);
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dset = H5Dopen (file, "dset");
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file_space = H5Dget_space (dset);
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nio_g = 0;
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for (i=0, hs_size[0]=io_size; hs_size[0]==io_size; i+=offset) {
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hs_offset[0] = hs_offset[1] = i;
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hs_size[0] = hs_size[1] = MIN (io_size, CH_SIZE*DS_SIZE-i);
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mem_space = H5Screate_simple (2, hs_size, hs_size);
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H5Sselect_hyperslab (file_space, H5S_SELECT_SET, hs_offset, NULL,
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hs_size, NULL);
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if (READ==op) {
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H5Dread (dset, H5T_NATIVE_SCHAR, mem_space, file_space,
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H5P_DEFAULT, buf);
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} else {
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H5Dwrite (dset, H5T_NATIVE_SCHAR, mem_space, file_space,
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H5P_DEFAULT, buf);
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}
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H5Sclose (mem_space);
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nio += hs_size[0]*hs_size[1];
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if (i>0) nio -= SQUARE (io_size-offset);
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}
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free (buf);
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H5Sclose (file_space);
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H5Dclose (dset);
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H5Fclose (file);
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/*
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* The extra cast in the following statement is a bug workaround for the
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* Win32 version 5.0 compiler.
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* 1998-11-06 ptl
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*/
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return (double)(hssize_t)nio/(hssize_t)nio_g;
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}
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/*-------------------------------------------------------------------------
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* Function: main
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*
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* Purpose: See file prologue.
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*
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* Return: Success:
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*
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* Failure:
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*
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* Programmer: Robb Matzke
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* Thursday, May 14, 1998
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*
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* Modifications:
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*
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*-------------------------------------------------------------------------
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*/
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int
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main (void)
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{
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size_t io_size;
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double effic, io_percent;
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FILE *f, *d;
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size_t cache_size;
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double w0;
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/*
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* Create a global file access property list.
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*/
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fapl_g = H5Pcreate (H5P_FILE_ACCESS);
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H5Pget_cache (fapl_g, NULL, NULL, NULL, &w0);
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/* Create the file */
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create_dataset ();
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f = fopen ("x-gnuplot", "w");
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printf("Test %8s %8s %8s\n", "CacheSz", "ChunkSz", "Effic");
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printf("--------- -------- -------- --------\n");
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#if 1
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/*
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* Test row-major reading of the dataset with various sizes of request
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* windows.
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*/
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if (RM_CACHE_STRT==RM_CACHE_END) {
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fprintf (f, "set yrange [0:1.2]\n");
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fprintf (f, "set ytics 0, 0.1, 1\n");
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fprintf (f, "set xlabel \"%s\"\n",
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"Request size as a fraction of chunk size");
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fprintf (f, "set ylabel \"Efficiency\"\n");
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fprintf (f, "set title \"Cache %d chunks, w0=%g, "
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"Size=(total=%d, chunk=%d)\"\n",
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RM_CACHE_STRT, w0, DS_SIZE*CH_SIZE, CH_SIZE);
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} else {
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fprintf (f, "set autoscale\n");
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fprintf (f, "set hidden3d\n");
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}
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fprintf (f, "set terminal postscript\nset output \"x-rowmaj-rd.ps\"\n");
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fprintf (f, "%s \"x-rowmaj-rd.dat\" title \"RowMaj-Read\" with %s\n",
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RM_CACHE_STRT==RM_CACHE_END?"plot":"splot",
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LINESPOINTS);
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fprintf (f, "set terminal x11\nreplot\n");
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d = fopen ("x-rowmaj-rd.dat", "w");
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for (cache_size=RM_CACHE_STRT;
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cache_size<=RM_CACHE_END;
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cache_size+=RM_CACHE_DELT) {
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for (io_percent=RM_START; io_percent<=RM_END; io_percent+=RM_DELTA) {
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io_size = MAX (1, (size_t)(CH_SIZE*io_percent));
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printf ("Rowmaj-rd %8d %8.2f", (int)cache_size, io_percent);
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fflush (stdout);
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effic = test_rowmaj (READ, cache_size, io_size);
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printf (" %8.2f\n", effic);
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if (RM_CACHE_STRT==RM_CACHE_END) {
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fprintf (d, "%g %g\n", io_percent, effic);
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} else {
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fprintf (d, "%g\n", effic);
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}
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}
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fprintf (d, "\n");
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}
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fclose (d);
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fprintf (f, "pause -1\n");
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#endif
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#if 1
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/*
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* Test row-major writing of the dataset with various sizes of request
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* windows.
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*/
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if (RM_CACHE_STRT==RM_CACHE_END) {
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fprintf (f, "set yrange [0:1.2]\n");
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fprintf (f, "set ytics 0, 0.1, 1\n");
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fprintf (f, "set xlabel \"%s\"\n",
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"Request size as a fraction of chunk size");
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fprintf (f, "set ylabel \"Efficiency\"\n");
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fprintf (f, "set title \"Cache %d chunks,w0=%g, "
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"Size=(total=%d, chunk=%d)\"\n",
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RM_CACHE_STRT, w0, DS_SIZE*CH_SIZE, CH_SIZE);
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} else {
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fprintf (f, "set autoscale\n");
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fprintf (f, "set hidden3d\n");
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}
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fprintf (f, "set terminal postscript\nset output \"x-rowmaj-wr.ps\"\n");
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fprintf (f, "%s \"x-rowmaj-wr.dat\" title \"RowMaj-Write\" with %s\n",
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RM_CACHE_STRT==RM_CACHE_END?"plot":"splot",
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LINESPOINTS);
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fprintf (f, "set terminal x11\nreplot\n");
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d = fopen ("x-rowmaj-wr.dat", "w");
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for (cache_size=RM_CACHE_STRT;
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cache_size<=RM_CACHE_END;
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cache_size+=RM_CACHE_DELT) {
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for (io_percent=RM_START; io_percent<=RM_END; io_percent+=RM_DELTA) {
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io_size = MAX (1, (size_t)(CH_SIZE*io_percent));
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printf ("Rowmaj-wr %8d %8.2f", (int)cache_size, io_percent);
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fflush (stdout);
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effic = test_rowmaj (WRITE, cache_size, io_size);
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printf (" %8.2f\n", effic);
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if (RM_CACHE_STRT==RM_CACHE_END) {
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fprintf (d, "%g %g\n", io_percent, effic);
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} else {
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fprintf (d, "%g\n", effic);
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}
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}
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fprintf (d, "\n");
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}
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fclose (d);
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fprintf (f, "pause -1\n");
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#endif
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#if 1
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/*
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* Test diagonal read
|
||
*/
|
||
if (DIAG_CACHE_STRT==DIAG_CACHE_END) {
|
||
fprintf (f, "set yrange [0:1.2]\n");
|
||
fprintf (f, "set ytics 0, 0.1, 1\n");
|
||
fprintf (f, "set xlabel \"%s\"\n",
|
||
"Request size as a fraction of chunk size");
|
||
fprintf (f, "set ylabel \"Efficiency\"\n");
|
||
fprintf (f, "set title \"Cache %d chunks,w0=%g, "
|
||
"Size=(total=%d, chunk=%d)\"\n",
|
||
DIAG_CACHE_STRT, w0, DS_SIZE*CH_SIZE, CH_SIZE);
|
||
} else {
|
||
fprintf (f, "set autoscale\n");
|
||
fprintf (f, "set hidden3d\n");
|
||
}
|
||
fprintf (f, "set terminal postscript\nset output \"x-diag-rd.ps\"\n");
|
||
fprintf (f, "%s \"x-diag-rd.dat\" title \"Diag-Read\" with %s\n",
|
||
DIAG_CACHE_STRT==DIAG_CACHE_END?"plot":"splot", LINESPOINTS);
|
||
fprintf (f, "set terminal x11\nreplot\n");
|
||
d = fopen ("x-diag-rd.dat", "w");
|
||
for (cache_size=DIAG_CACHE_STRT;
|
||
cache_size<=DIAG_CACHE_END;
|
||
cache_size+=DIAG_CACHE_DELT) {
|
||
for (io_percent=DIAG_START;
|
||
io_percent<=DIAG_END;
|
||
io_percent+=DIAG_DELTA) {
|
||
io_size = MAX (1, (size_t)(CH_SIZE*io_percent));
|
||
printf ("Diag-rd %8d %8.2f", (int)cache_size, io_percent);
|
||
fflush (stdout);
|
||
effic = test_diag (READ, cache_size, io_size, MAX (1, io_size/2));
|
||
printf (" %8.2f\n", effic);
|
||
if (DIAG_CACHE_STRT==DIAG_CACHE_END) {
|
||
fprintf (d, "%g %g\n", io_percent, effic);
|
||
} else {
|
||
fprintf (d, "%g\n", effic);
|
||
}
|
||
}
|
||
fprintf (d, "\n");
|
||
}
|
||
fclose (d);
|
||
fprintf (f, "pause -1\n");
|
||
#endif
|
||
|
||
#if 1
|
||
/*
|
||
* Test diagonal write
|
||
*/
|
||
if (DIAG_CACHE_STRT==DIAG_CACHE_END) {
|
||
fprintf (f, "set yrange [0:1.2]\n");
|
||
fprintf (f, "set ytics 0, 0.1, 1\n");
|
||
fprintf (f, "set xlabel \"%s\"\n",
|
||
"Request size as a fraction of chunk size");
|
||
fprintf (f, "set ylabel \"Efficiency\"\n");
|
||
fprintf (f, "set title \"Cache %d chunks, w0=%g, "
|
||
"Size=(total=%d, chunk=%d)\"\n",
|
||
DIAG_CACHE_STRT, w0, DS_SIZE*CH_SIZE, CH_SIZE);
|
||
} else {
|
||
fprintf (f, "set autoscale\n");
|
||
fprintf (f, "set hidden3d\n");
|
||
}
|
||
fprintf (f, "set terminal postscript\nset output \"x-diag-wr.ps\"\n");
|
||
fprintf (f, "%s \"x-diag-wr.dat\" title \"Diag-Write\" with %s\n",
|
||
DIAG_CACHE_STRT==DIAG_CACHE_END?"plot":"splot", LINESPOINTS);
|
||
fprintf (f, "set terminal x11\nreplot\n");
|
||
d = fopen ("x-diag-wr.dat", "w");
|
||
for (cache_size=DIAG_CACHE_STRT;
|
||
cache_size<=DIAG_CACHE_END;
|
||
cache_size+=DIAG_CACHE_DELT) {
|
||
for (io_percent=DIAG_START;
|
||
io_percent<=DIAG_END;
|
||
io_percent+=DIAG_DELTA) {
|
||
io_size = MAX (1, (size_t)(CH_SIZE*io_percent));
|
||
printf ("Diag-wr %8d %8.2f", (int)cache_size, io_percent);
|
||
fflush (stdout);
|
||
effic = test_diag (WRITE, cache_size, io_size, MAX (1, io_size/2));
|
||
printf (" %8.2f\n", effic);
|
||
if (DIAG_CACHE_STRT==DIAG_CACHE_END) {
|
||
fprintf (d, "%g %g\n", io_percent, effic);
|
||
} else {
|
||
fprintf (d, "%g\n", effic);
|
||
}
|
||
}
|
||
fprintf (d, "\n");
|
||
}
|
||
fclose (d);
|
||
fprintf (f, "pause -1\n");
|
||
#endif
|
||
|
||
|
||
H5Pclose (fapl_g);
|
||
fclose (f);
|
||
return 0;
|
||
}
|
||
|