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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 files COPYING and Copyright.html. COPYING can be found at the root *
* of the source code distribution tree; Copyright.html can be found at the *
* root level of an installed copy of the electronic HDF5 document set and *
* is linked from the top-level documents page. It can also be found at *
* http://hdfgroup.org/HDF5/doc/Copyright.html. If you do not have *
* access to either file, you may request a copy from help@hdfgroup.org. *
* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */
/* Programmer: Quincey Koziol <koziol@ncsa.uiuc.ued>
* Thursday, September 30, 2004
*
* Purpose: Dataspace I/O functions.
*/
/****************/
/* Module Setup */
/****************/
#define H5D_PACKAGE /*suppress error about including H5Dpkg */
/***********/
/* Headers */
/***********/
#include "H5private.h" /* Generic Functions */
#include "H5Dpkg.h" /* Datasets */
#include "H5Eprivate.h" /* Error handling */
#include "H5FLprivate.h" /* Free Lists */
/****************/
/* Local Macros */
/****************/
/******************/
/* Local Typedefs */
/******************/
/********************/
/* Local Prototypes */
/********************/
static herr_t H5D__select_io(const H5D_io_info_t *io_info, size_t elmt_size,
size_t nelmts, const H5S_t *file_space, const H5S_t *mem_space);
/*********************/
/* Package Variables */
/*********************/
/*******************/
/* Local Variables */
/*******************/
/* Declare a free list to manage sequences of size_t */
H5FL_SEQ_DEFINE(size_t);
/* Declare a free list to manage sequences of hsize_t */
H5FL_SEQ_DEFINE(hsize_t);
/*-------------------------------------------------------------------------
* Function: H5D__select_io
*
* Purpose: Perform I/O directly from application memory and a file
*
* Return: Non-negative on success/Negative on failure
*
* Programmer: Quincey Koziol
* Tuesday, November 27, 2007
*
*-------------------------------------------------------------------------
*/
static herr_t
H5D__select_io(const H5D_io_info_t *io_info, size_t elmt_size,
size_t nelmts, const H5S_t *file_space, const H5S_t *mem_space)
{
H5S_sel_iter_t mem_iter; /* Memory selection iteration info */
hbool_t mem_iter_init = 0; /* Memory selection iteration info has been initialized */
H5S_sel_iter_t file_iter; /* File selection iteration info */
hbool_t file_iter_init = 0; /* File selection iteration info has been initialized */
hsize_t _mem_off[H5D_IO_VECTOR_SIZE]; /* Array to store sequence offsets in memory */
hsize_t *mem_off = NULL; /* Pointer to sequence offsets in memory */
hsize_t _file_off[H5D_IO_VECTOR_SIZE]; /* Array to store sequence offsets in the file */
hsize_t *file_off = NULL; /* Pointer to sequence offsets in the file */
size_t _mem_len[H5D_IO_VECTOR_SIZE]; /* Array to store sequence lengths in memory */
size_t *mem_len = NULL; /* Pointer to sequence lengths in memory */
size_t _file_len[H5D_IO_VECTOR_SIZE]; /* Array to store sequence lengths in the file */
size_t *file_len = NULL; /* Pointer to sequence lengths in the file */
size_t curr_mem_seq; /* Current memory sequence to operate on */
size_t curr_file_seq; /* Current file sequence to operate on */
size_t mem_nseq; /* Number of sequences generated in the file */
size_t file_nseq; /* Number of sequences generated in memory */
ssize_t tmp_file_len; /* Temporary number of bytes in file sequence */
herr_t ret_value = SUCCEED; /* Return value */
FUNC_ENTER_STATIC
/* Check args */
HDassert(io_info);
HDassert(io_info->dset);
HDassert(io_info->store);
HDassert(TRUE == H5P_isa_class(io_info->dxpl_id, H5P_DATASET_XFER));
HDassert(io_info->u.rbuf);
/* Allocate the vector I/O arrays */
if(io_info->dxpl_cache->vec_size > H5D_IO_VECTOR_SIZE) {
if(NULL == (mem_len = H5FL_SEQ_MALLOC(size_t,io_info->dxpl_cache->vec_size)))
HGOTO_ERROR(H5E_RESOURCE, H5E_NOSPACE, FAIL, "can't allocate I/O length vector array")
if(NULL == (mem_off = H5FL_SEQ_MALLOC(hsize_t,io_info->dxpl_cache->vec_size)))
HGOTO_ERROR(H5E_RESOURCE, H5E_NOSPACE, FAIL, "can't allocate I/O offset vector array")
if(NULL == (file_len = H5FL_SEQ_MALLOC(size_t,io_info->dxpl_cache->vec_size)))
HGOTO_ERROR(H5E_RESOURCE, H5E_NOSPACE, FAIL, "can't allocate I/O length vector array")
if(NULL == (file_off = H5FL_SEQ_MALLOC(hsize_t,io_info->dxpl_cache->vec_size)))
HGOTO_ERROR(H5E_RESOURCE, H5E_NOSPACE, FAIL, "can't allocate I/O offset vector array")
} /* end if */
else {
mem_len = _mem_len;
mem_off = _mem_off;
file_len = _file_len;
file_off = _file_off;
} /* end else */
/* Check for only one element in selection */
if(nelmts == 1) {
/* Get offset of first element in selections */
if(H5S_SELECT_OFFSET(file_space, file_off) < 0)
HGOTO_ERROR(H5E_INTERNAL, H5E_UNSUPPORTED, FAIL, "can't retrieve file selection offset")
if(H5S_SELECT_OFFSET(mem_space, mem_off) < 0)
HGOTO_ERROR(H5E_INTERNAL, H5E_UNSUPPORTED, FAIL, "can't retrieve memory selection offset")
/* Set up necessary information for I/O operation */
file_nseq = mem_nseq = 1;
curr_mem_seq = curr_file_seq = 0;
*file_off *= elmt_size;
*mem_off *= elmt_size;
*file_len = *mem_len = elmt_size;
/* Perform I/O on memory and file sequences */
if(io_info->op_type == H5D_IO_OP_READ) {
if((tmp_file_len = (*io_info->layout_ops.readvv)(io_info,
file_nseq, &curr_file_seq, file_len, file_off,
mem_nseq, &curr_mem_seq, mem_len, mem_off)) < 0)
HGOTO_ERROR(H5E_DATASPACE, H5E_READERROR, FAIL, "read error")
} /* end if */
else {
HDassert(io_info->op_type == H5D_IO_OP_WRITE);
if((tmp_file_len = (*io_info->layout_ops.writevv)(io_info,
file_nseq, &curr_file_seq, file_len, file_off,
mem_nseq, &curr_mem_seq, mem_len, mem_off)) < 0)
HGOTO_ERROR(H5E_DATASPACE, H5E_WRITEERROR, FAIL, "write error")
} /* end else */
/* Decrement number of elements left to process */
HDassert(((size_t)tmp_file_len % elmt_size) == 0);
} /* end if */
else {
size_t mem_nelem; /* Number of elements used in memory sequences */
size_t file_nelem; /* Number of elements used in file sequences */
/* Initialize file iterator */
if(H5S_select_iter_init(&file_iter, file_space, elmt_size) < 0)
HGOTO_ERROR(H5E_DATASPACE, H5E_CANTINIT, FAIL, "unable to initialize selection iterator")
file_iter_init = 1; /* File selection iteration info has been initialized */
/* Initialize memory iterator */
if(H5S_select_iter_init(&mem_iter, mem_space, elmt_size) < 0)
HGOTO_ERROR(H5E_DATASPACE, H5E_CANTINIT, FAIL, "unable to initialize selection iterator")
mem_iter_init = 1; /* Memory selection iteration info has been initialized */
/* Initialize sequence counts */
curr_mem_seq = curr_file_seq = 0;
mem_nseq = file_nseq = 0;
/* Loop, until all bytes are processed */
while(nelmts > 0) {
/* Check if more file sequences are needed */
if(curr_file_seq >= file_nseq) {
/* Get sequences for file selection */
if(H5S_SELECT_GET_SEQ_LIST(file_space, H5S_GET_SEQ_LIST_SORTED, &file_iter, io_info->dxpl_cache->vec_size, nelmts, &file_nseq, &file_nelem, file_off, file_len) < 0)
HGOTO_ERROR(H5E_INTERNAL, H5E_UNSUPPORTED, FAIL, "sequence length generation failed")
/* Start at the beginning of the sequences again */
curr_file_seq = 0;
} /* end if */
/* Check if more memory sequences are needed */
if(curr_mem_seq >= mem_nseq) {
/* Get sequences for memory selection */
if(H5S_SELECT_GET_SEQ_LIST(mem_space, 0, &mem_iter, io_info->dxpl_cache->vec_size, nelmts, &mem_nseq, &mem_nelem, mem_off, mem_len) < 0)
HGOTO_ERROR(H5E_INTERNAL, H5E_UNSUPPORTED, FAIL, "sequence length generation failed")
/* Start at the beginning of the sequences again */
curr_mem_seq = 0;
} /* end if */
/* Perform I/O on memory and file sequences */
if(io_info->op_type == H5D_IO_OP_READ) {
if((tmp_file_len = (*io_info->layout_ops.readvv)(io_info,
file_nseq, &curr_file_seq, file_len, file_off,
mem_nseq, &curr_mem_seq, mem_len, mem_off)) < 0)
HGOTO_ERROR(H5E_DATASPACE, H5E_READERROR, FAIL, "read error")
} /* end if */
else {
HDassert(io_info->op_type == H5D_IO_OP_WRITE);
if((tmp_file_len = (*io_info->layout_ops.writevv)(io_info,
file_nseq, &curr_file_seq, file_len, file_off,
mem_nseq, &curr_mem_seq, mem_len, mem_off)) < 0)
HGOTO_ERROR(H5E_DATASPACE, H5E_WRITEERROR, FAIL, "write error")
} /* end else */
/* Decrement number of elements left to process */
HDassert(((size_t)tmp_file_len % elmt_size) == 0);
nelmts -= ((size_t)tmp_file_len / elmt_size);
} /* end while */
} /* end else */
done:
/* Release file selection iterator */
if(file_iter_init)
if(H5S_SELECT_ITER_RELEASE(&file_iter) < 0)
HDONE_ERROR(H5E_DATASPACE, H5E_CANTRELEASE, FAIL, "unable to release selection iterator")
/* Release memory selection iterator */
if(mem_iter_init)
if(H5S_SELECT_ITER_RELEASE(&mem_iter) < 0)
HDONE_ERROR(H5E_DATASPACE, H5E_CANTRELEASE, FAIL, "unable to release selection iterator")
/* Release vector arrays, if allocated */
if(file_len && file_len != _file_len)
file_len = H5FL_SEQ_FREE(size_t, file_len);
if(file_off && file_off != _file_off)
file_off = H5FL_SEQ_FREE(hsize_t, file_off);
if(mem_len && mem_len != _mem_len)
mem_len = H5FL_SEQ_FREE(size_t, mem_len);
if(mem_off && mem_off != _mem_off)
mem_off = H5FL_SEQ_FREE(hsize_t, mem_off);
FUNC_LEAVE_NOAPI(ret_value)
} /* end H5D__select_io() */
/*-------------------------------------------------------------------------
* Function: H5D__select_read
*
* Purpose: Reads directly from file into application memory.
*
* Return: Non-negative on success/Negative on failure
*
* Programmer: Quincey Koziol
* Tuesday, July 23, 2002
*
*-------------------------------------------------------------------------
*/
herr_t
H5D__select_read(const H5D_io_info_t *io_info, const H5D_type_info_t *type_info,
hsize_t nelmts, const H5S_t *file_space, const H5S_t *mem_space)
{
herr_t ret_value = SUCCEED; /* Return value */
FUNC_ENTER_PACKAGE
/* Call generic selection operation */
H5_CHECK_OVERFLOW(nelmts, hsize_t, size_t);
if(H5D__select_io(io_info, type_info->src_type_size, (size_t)nelmts,
file_space, mem_space) < 0)
HGOTO_ERROR(H5E_DATASPACE, H5E_READERROR, FAIL, "read error")
done:
FUNC_LEAVE_NOAPI(ret_value)
} /* end H5D__select_read() */
/*-------------------------------------------------------------------------
* Function: H5D__select_write
*
* Purpose: Writes directly from application memory into a file
*
* Return: Non-negative on success/Negative on failure
*
* Programmer: Quincey Koziol
* Tuesday, July 23, 2002
*
*-------------------------------------------------------------------------
*/
herr_t
H5D__select_write(const H5D_io_info_t *io_info, const H5D_type_info_t *type_info,
hsize_t nelmts, const H5S_t *file_space, const H5S_t *mem_space)
{
herr_t ret_value = SUCCEED; /* Return value */
FUNC_ENTER_PACKAGE
/* Call generic selection operation */
H5_CHECK_OVERFLOW(nelmts, hsize_t, size_t);
if(H5D__select_io(io_info, type_info->dst_type_size, (size_t)nelmts,
file_space, mem_space) < 0)
HGOTO_ERROR(H5E_DATASPACE, H5E_WRITEERROR, FAIL, "write error")
done:
FUNC_LEAVE_NOAPI(ret_value)
} /* end H5D__select_write() */
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