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authorQuincey Koziol <koziol@hdfgroup.org>2004-12-29 14:26:20 (GMT)
committerQuincey Koziol <koziol@hdfgroup.org>2004-12-29 14:26:20 (GMT)
commit427ff7da2848042f68ecfadf5a321b1d8077e9db (patch)
tree73024b1954031fbb724c2d96a485590348e5cc22 /src/H5Dio.c
parent9b96fd2003ae74cca389cc4c2216b4371d6eb173 (diff)
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[svn-r9727] Purpose:
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:
Diffstat (limited to 'src/H5Dio.c')
-rw-r--r--src/H5Dio.c136
1 files changed, 81 insertions, 55 deletions
diff --git a/src/H5Dio.c b/src/H5Dio.c
index 1a1802e..7e8e1a0 100644
--- a/src/H5Dio.c
+++ b/src/H5Dio.c
@@ -44,7 +44,7 @@ typedef struct H5D_chunk_info_t {
hsize_t index; /* "Index" of chunk in dataset (must be first for TBBT routines) */
size_t chunk_points; /* Number of elements selected in chunk */
H5S_t *fspace; /* Dataspace describing chunk & selection in it */
- hssize_t coords[H5O_LAYOUT_NDIMS]; /* Coordinates of chunk in file dataset's dataspace */
+ hsize_t coords[H5O_LAYOUT_NDIMS]; /* Coordinates of chunk in file dataset's dataspace */
H5S_t *mspace; /* Dataspace describing selection in memory corresponding to this chunk */
unsigned mspace_shared; /* Indicate that the memory space for a chunk is shared and shouldn't be freed */
} H5D_chunk_info_t;
@@ -117,16 +117,16 @@ H5D_ioinfo_init(H5D_t *dset, const H5D_dxpl_cache_t *dxpl_cache, hid_t dxpl_id,
unsigned flags, hbool_t *use_par_opt_io, H5D_io_info_t *io_info);
/* Chunk operations */
-static herr_t H5D_create_chunk_map(H5D_t *dataset, const H5T_t *mem_type,
+static herr_t H5D_create_chunk_map(const H5D_t *dataset, const H5T_t *mem_type,
const H5S_t *file_space, const H5S_t *mem_space, fm_map *fm);
static herr_t H5D_destroy_chunk_map(const fm_map *fm);
static void H5D_free_chunk_info(void *chunk_info);
-static herr_t H5D_create_chunk_file_map_hyper(fm_map *fm);
+static herr_t H5D_create_chunk_file_map_hyper(const fm_map *fm);
static herr_t H5D_create_chunk_mem_map_hyper(const fm_map *fm);
-static herr_t H5D_chunk_file_cb(void *elem, hid_t type_id, hsize_t ndims,
- hssize_t *coords, void *fm);
-static herr_t H5D_chunk_mem_cb(void *elem, hid_t type_id, hsize_t ndims,
- hssize_t *coords, void *fm);
+static herr_t H5D_chunk_file_cb(void *elem, hid_t type_id, unsigned ndims,
+ const hsize_t *coords, void *fm);
+static herr_t H5D_chunk_mem_cb(void *elem, hid_t type_id, unsigned ndims,
+ const hsize_t *coords, void *fm);
/* Declare a free list to manage blocks of single datatype element data */
H5FL_BLK_DEFINE(type_elem);
@@ -337,11 +337,7 @@ H5D_get_dxpl_cache_real(hid_t dxpl_id, H5D_dxpl_cache_t *cache)
/* Get B-tree split ratios */
if(H5P_get(dx_plist, H5D_XFER_BTREE_SPLIT_RATIO_NAME, &cache->btree_split_ratio)<0)
- HGOTO_ERROR (H5E_PLIST, H5E_CANTGET, FAIL, "Can't retrieve background buffer type")
-
- /* Get B-tree split ratios */
- if(H5P_get(dx_plist, H5D_XFER_BTREE_SPLIT_RATIO_NAME, &cache->btree_split_ratio)<0)
- HGOTO_ERROR (H5E_PLIST, H5E_CANTGET, FAIL, "Can't retrieve background buffer type")
+ HGOTO_ERROR (H5E_PLIST, H5E_CANTGET, FAIL, "Can't retrieve B-tree split ratios")
/* Get I/O vector size */
if(H5P_get(dx_plist, H5D_XFER_HYPER_VECTOR_SIZE_NAME, &cache->vec_size)<0)
@@ -2356,7 +2352,7 @@ done:
*-------------------------------------------------------------------------
*/
static herr_t
-H5D_create_chunk_map(H5D_t *dataset, const H5T_t *mem_type, const H5S_t *file_space,
+H5D_create_chunk_map(const H5D_t *dataset, const H5T_t *mem_type, const H5S_t *file_space,
const H5S_t *mem_space, fm_map *fm)
{
H5S_t *tmp_mspace=NULL; /* Temporary memory dataspace */
@@ -2435,9 +2431,9 @@ H5D_create_chunk_map(H5D_t *dataset, const H5T_t *mem_type, const H5S_t *file_sp
fm->mem_space_copy=equiv_mspace_init; /* Make certain to copy memory dataspace if necessary */
/* Get type of selection on disk & in memory */
- if((fsel_type=H5S_GET_SELECT_TYPE(file_space))<0)
+ if((fsel_type=H5S_GET_SELECT_TYPE(file_space))<H5S_SEL_NONE)
HGOTO_ERROR (H5E_DATASET, H5E_BADSELECT, FAIL, "unable to convert from file to memory data space")
- if((fm->msel_type=H5S_GET_SELECT_TYPE(equiv_mspace))<0)
+ if((fm->msel_type=H5S_GET_SELECT_TYPE(equiv_mspace))<H5S_SEL_NONE)
HGOTO_ERROR (H5E_DATASET, H5E_BADSELECT, FAIL, "unable to convert from file to memory data space")
/* Check if file selection is a point selection */
@@ -2664,14 +2660,15 @@ done:
*-------------------------------------------------------------------------
*/
static herr_t
-H5D_create_chunk_file_map_hyper(fm_map *fm)
+H5D_create_chunk_file_map_hyper(const fm_map *fm)
{
- hssize_t sel_points; /* Number of elements in file selection */
- hssize_t sel_start[H5O_LAYOUT_NDIMS]; /* Offset of low bound of file selection */
- hssize_t sel_end[H5O_LAYOUT_NDIMS]; /* Offset of high bound of file selection */
- hssize_t start_coords[H5O_LAYOUT_NDIMS]; /* Starting coordinates of selection */
- hssize_t coords[H5O_LAYOUT_NDIMS]; /* Current coordinates of chunk */
- hssize_t end[H5O_LAYOUT_NDIMS]; /* Current coordinates of chunk */
+ hssize_t ssel_points; /* Number of elements in file selection */
+ hsize_t sel_points; /* Number of elements in file selection */
+ hsize_t sel_start[H5O_LAYOUT_NDIMS]; /* Offset of low bound of file selection */
+ hsize_t sel_end[H5O_LAYOUT_NDIMS]; /* Offset of high bound of file selection */
+ hsize_t start_coords[H5O_LAYOUT_NDIMS]; /* Starting coordinates of selection */
+ hsize_t coords[H5O_LAYOUT_NDIMS]; /* Current coordinates of chunk */
+ hsize_t end[H5O_LAYOUT_NDIMS]; /* Current coordinates of chunk */
hsize_t chunk_index; /* Index of chunk */
int curr_dim; /* Current dimension to increment */
unsigned u; /* Local index variable */
@@ -2683,8 +2680,9 @@ H5D_create_chunk_file_map_hyper(fm_map *fm)
assert(fm->f_ndims>0);
/* Get number of elements selected in file */
- if((sel_points=H5S_GET_SELECT_NPOINTS(fm->file_space))<0)
+ if((ssel_points=H5S_GET_SELECT_NPOINTS(fm->file_space))<0)
HGOTO_ERROR(H5E_DATASPACE, H5E_CANTGET, FAIL, "can't get file selection # of elements")
+ H5_ASSIGN_OVERFLOW(sel_points,ssel_points,hssize_t,hsize_t);
/* Get bounding box for selection (to reduce the number of chunks to iterate over) */
if(H5S_SELECT_BOUNDS(fm->file_space, sel_start, sel_end)<0)
@@ -2692,8 +2690,7 @@ H5D_create_chunk_file_map_hyper(fm_map *fm)
/* Set initial chunk location & hyperslab size */
for(u=0; u<fm->f_ndims; u++) {
- H5_CHECK_OVERFLOW(fm->layout->u.chunk.dim[u],hsize_t,hssize_t);
- start_coords[u]=(sel_start[u]/(hssize_t)fm->layout->u.chunk.dim[u])*(hssize_t)fm->layout->u.chunk.dim[u];
+ start_coords[u]=(sel_start[u]/fm->layout->u.chunk.dim[u])*fm->layout->u.chunk.dim[u];
coords[u]=start_coords[u];
end[u]=(coords[u]+fm->chunk_dim[u])-1;
} /* end for */
@@ -2716,12 +2713,16 @@ H5D_create_chunk_file_map_hyper(fm_map *fm)
HGOTO_ERROR (H5E_DATASPACE, H5E_CANTCOPY, FAIL, "unable to copy memory space")
/* Make certain selections are stored in span tree form (not "optimized hyperslab" or "all") */
- if(H5S_hyper_convert(tmp_fchunk)<0)
+ if(H5S_hyper_convert(tmp_fchunk)<0) {
+ (void)H5S_close(tmp_fchunk);
HGOTO_ERROR (H5E_DATASPACE, H5E_CANTINIT, FAIL, "unable to convert selection to span trees")
+ } /* end if */
/* Normalize hyperslab selections by adjusting them by the offset */
- if(H5S_hyper_normalize_offset(tmp_fchunk)<0)
+ if(H5S_hyper_normalize_offset(tmp_fchunk)<0) {
+ (void)H5S_close(tmp_fchunk);
HGOTO_ERROR (H5E_DATASET, H5E_BADSELECT, FAIL, "unable to normalize dataspace by offset")
+ } /* end if */
/* "AND" temporary chunk and current chunk */
if(H5S_select_hyperslab(tmp_fchunk,H5S_SELECT_AND,coords,NULL,fm->chunk_dim,NULL)<0) {
@@ -2736,7 +2737,7 @@ H5D_create_chunk_file_map_hyper(fm_map *fm)
} /* end if */
/* Move selection back to have correct offset in chunk */
- if(H5S_hyper_adjust(tmp_fchunk,coords)<0) {
+ if(H5S_hyper_adjust_u(tmp_fchunk,coords)<0) {
(void)H5S_close(tmp_fchunk);
HGOTO_ERROR(H5E_DATASPACE, H5E_CANTSELECT, FAIL, "can't adjust chunk selection")
} /* end if */
@@ -2778,7 +2779,7 @@ H5D_create_chunk_file_map_hyper(fm_map *fm)
H5_ASSIGN_OVERFLOW(new_chunk_info->chunk_points,schunk_points,hssize_t,size_t);
/* Decrement # of points left in file selection */
- sel_points-=schunk_points;
+ sel_points-=(hsize_t)schunk_points;
/* Leave if we are done */
if(sel_points==0)
@@ -2794,8 +2795,8 @@ H5D_create_chunk_file_map_hyper(fm_map *fm)
/* Increment chunk location in fastest changing dimension */
H5_CHECK_OVERFLOW(fm->chunk_dim[curr_dim],hsize_t,hssize_t);
- coords[curr_dim]+=(hssize_t)fm->chunk_dim[curr_dim];
- end[curr_dim]+=(hssize_t)fm->chunk_dim[curr_dim];
+ coords[curr_dim]+=fm->chunk_dim[curr_dim];
+ end[curr_dim]+=fm->chunk_dim[curr_dim];
/* Bring chunk location back into bounds, if necessary */
if(coords[curr_dim]>sel_end[curr_dim]) {
@@ -2808,8 +2809,8 @@ H5D_create_chunk_file_map_hyper(fm_map *fm)
curr_dim--;
/* Increment chunk location in current dimension */
- coords[curr_dim]+=(hssize_t)fm->chunk_dim[curr_dim];
- end[curr_dim]=(coords[curr_dim]+(hssize_t)fm->chunk_dim[curr_dim])-1;
+ coords[curr_dim]+=fm->chunk_dim[curr_dim];
+ end[curr_dim]=(coords[curr_dim]+fm->chunk_dim[curr_dim])-1;
} while(coords[curr_dim]>sel_end[curr_dim]);
/* Re-Calculate the index of this chunk */
@@ -2845,10 +2846,10 @@ static herr_t
H5D_create_chunk_mem_map_hyper(const fm_map *fm)
{
H5TB_NODE *curr_node; /* Current node in TBBT */
- hssize_t file_sel_start[H5O_LAYOUT_NDIMS]; /* Offset of low bound of file selection */
- hssize_t file_sel_end[H5O_LAYOUT_NDIMS]; /* Offset of high bound of file selection */
- hssize_t mem_sel_start[H5O_LAYOUT_NDIMS]; /* Offset of low bound of file selection */
- hssize_t mem_sel_end[H5O_LAYOUT_NDIMS]; /* Offset of high bound of file selection */
+ hsize_t file_sel_start[H5O_LAYOUT_NDIMS]; /* Offset of low bound of file selection */
+ hsize_t file_sel_end[H5O_LAYOUT_NDIMS]; /* Offset of high bound of file selection */
+ hsize_t mem_sel_start[H5O_LAYOUT_NDIMS]; /* Offset of low bound of file selection */
+ hsize_t mem_sel_end[H5O_LAYOUT_NDIMS]; /* Offset of high bound of file selection */
hssize_t adjust[H5O_LAYOUT_NDIMS]; /* Adjustment to make to all file chunks */
hssize_t chunk_adjust[H5O_LAYOUT_NDIMS]; /* Adjustment to make to a particular chunk */
unsigned u; /* Local index variable */
@@ -2896,8 +2897,11 @@ H5D_create_chunk_mem_map_hyper(const fm_map *fm)
/* Calculate the adjustment for memory selection from file selection */
assert(fm->m_ndims==fm->f_ndims);
- for(u=0; u<fm->f_ndims; u++)
- adjust[u]=file_sel_start[u]-mem_sel_start[u];
+ for(u=0; u<fm->f_ndims; u++) {
+ H5_CHECK_OVERFLOW(file_sel_start[u],hsize_t,hssize_t);
+ H5_CHECK_OVERFLOW(mem_sel_start[u],hsize_t,hssize_t);
+ adjust[u]=(hssize_t)file_sel_start[u]-(hssize_t)mem_sel_start[u];
+ } /* end for */
/* Iterate over each chunk in the chunk list */
curr_node=H5TB_first(fm->fsel->root);
@@ -2923,11 +2927,13 @@ H5D_create_chunk_mem_map_hyper(const fm_map *fm)
HGOTO_ERROR (H5E_DATASPACE, H5E_CANTCOPY, FAIL, "unable to copy selection")
/* Compensate for the chunk offset */
- for(u=0; u<fm->f_ndims; u++)
- chunk_adjust[u]=adjust[u]-chunk_info->coords[u]; /*lint !e771 The adjust array will always be initialized */
+ for(u=0; u<fm->f_ndims; u++) {
+ H5_CHECK_OVERFLOW(chunk_info->coords[u],hsize_t,hssize_t);
+ chunk_adjust[u]=adjust[u]-(hssize_t)chunk_info->coords[u]; /*lint !e771 The adjust array will always be initialized */
+ } /* end for */
/* Adjust the selection */
- if(H5S_hyper_adjust(chunk_info->mspace,chunk_adjust)<0) /*lint !e772 The chunk_adjust array will always be initialized */
+ if(H5S_hyper_adjust_s(chunk_info->mspace,chunk_adjust)<0) /*lint !e772 The chunk_adjust array will always be initialized */
HGOTO_ERROR(H5E_DATASPACE, H5E_CANTSELECT, FAIL, "can't adjust chunk selection")
/* Get the next chunk node in the TBBT */
@@ -2956,11 +2962,11 @@ done:
*-------------------------------------------------------------------------
*/
static herr_t
-H5D_chunk_file_cb(void UNUSED *elem, hid_t UNUSED type_id, hsize_t ndims, hssize_t *coords, void *_fm)
+H5D_chunk_file_cb(void UNUSED *elem, hid_t UNUSED type_id, unsigned ndims, const hsize_t *coords, void *_fm)
{
fm_map *fm = (fm_map*)_fm; /* File<->memory chunk mapping info */
H5D_chunk_info_t *chunk_info; /* Chunk information for current chunk */
- hssize_t coords_in_chunk[H5O_LAYOUT_NDIMS]; /* Coordinates of element in chunk */
+ hsize_t coords_in_chunk[H5O_LAYOUT_NDIMS]; /* Coordinates of element in chunk */
hsize_t chunk_index; /* Chunk index */
unsigned u; /* Local index variable */
herr_t ret_value = SUCCEED; /* Return value */
@@ -2968,7 +2974,7 @@ H5D_chunk_file_cb(void UNUSED *elem, hid_t UNUSED type_id, hsize_t ndims, hssize
FUNC_ENTER_NOAPI_NOINIT(H5D_chunk_file_cb)
/* Calculate the index of this chunk */
- if(H5V_chunk_index((unsigned)ndims,coords,fm->layout->u.chunk.dim,fm->down_chunks,&chunk_index)<0)
+ if(H5V_chunk_index(ndims,coords,fm->layout->u.chunk.dim,fm->down_chunks,&chunk_index)<0)
HGOTO_ERROR (H5E_DATASPACE, H5E_BADRANGE, FAIL, "can't get chunk index")
/* Find correct chunk in file & memory TBBTs */
@@ -3051,7 +3057,7 @@ H5D_chunk_file_cb(void UNUSED *elem, hid_t UNUSED type_id, hsize_t ndims, hssize
coords_in_chunk[u]=coords[u]%fm->layout->u.chunk.dim[u];
/* Add point to file selection for chunk */
- if(H5S_select_elements(chunk_info->fspace,H5S_SELECT_APPEND,1,(const hssize_t **)coords_in_chunk)<0)
+ if(H5S_select_elements(chunk_info->fspace,H5S_SELECT_APPEND,1,(const hsize_t **)coords_in_chunk)<0)
HGOTO_ERROR (H5E_DATASPACE, H5E_CANTSELECT, FAIL, "unable to select element")
/* Increment the number of elemented selected in chunk */
@@ -3081,18 +3087,18 @@ done:
*/
/* ARGSUSED */
static herr_t
-H5D_chunk_mem_cb(void UNUSED *elem, hid_t UNUSED type_id, hsize_t ndims, hssize_t *coords, void *_fm)
+H5D_chunk_mem_cb(void UNUSED *elem, hid_t UNUSED type_id, unsigned ndims, const hsize_t *coords, void *_fm)
{
fm_map *fm = (fm_map*)_fm; /* File<->memory chunk mapping info */
H5D_chunk_info_t *chunk_info; /* Chunk information for current chunk */
- hssize_t coords_in_mem[H5O_LAYOUT_NDIMS]; /* Coordinates of element in memory */
+ hsize_t coords_in_mem[H5O_LAYOUT_NDIMS]; /* Coordinates of element in memory */
hsize_t chunk_index; /* Chunk index */
herr_t ret_value = SUCCEED; /* Return value */
FUNC_ENTER_NOAPI_NOINIT(H5D_chunk_mem_cb)
/* Calculate the index of this chunk */
- if(H5V_chunk_index((unsigned)ndims,coords,fm->layout->u.chunk.dim,fm->down_chunks,&chunk_index)<0)
+ if(H5V_chunk_index(ndims,coords,fm->layout->u.chunk.dim,fm->down_chunks,&chunk_index)<0)
HGOTO_ERROR (H5E_DATASPACE, H5E_BADRANGE, FAIL, "can't get chunk index")
/* Find correct chunk in file & memory TBBTs */
@@ -3133,7 +3139,7 @@ H5D_chunk_mem_cb(void UNUSED *elem, hid_t UNUSED type_id, hsize_t ndims, hssize_
/* Add point to memory selection for chunk */
if(fm->msel_type==H5S_SEL_POINTS) {
- if(H5S_select_elements(chunk_info->mspace,H5S_SELECT_APPEND,1,(const hssize_t **)coords_in_mem)<0)
+ if(H5S_select_elements(chunk_info->mspace,H5S_SELECT_APPEND,1,(const hsize_t **)coords_in_mem)<0)
HGOTO_ERROR (H5E_DATASPACE, H5E_CANTSELECT, FAIL, "unable to select element")
} /* end if */
else {
@@ -3151,7 +3157,7 @@ done:
/*-------------------------------------------------------------------------
- * Function: H5S_get_collective_io_consensus
+ * Function: H5D_get_collective_io_consensus
*
* Purpose: Compare notes with all other processes involved in this I/O
* and see if all are go for collective I/O.
@@ -3248,7 +3254,7 @@ done:
/*-------------------------------------------------------------------------
- * Function: H5D_chunk_mem_cb
+ * Function: H5D_ioinfo_init
*
* Purpose: Routine for determining correct I/O operations for
* each I/O action.
@@ -3264,15 +3270,34 @@ done:
*/
static herr_t
H5D_ioinfo_init(H5D_t *dset, const H5D_dxpl_cache_t *dxpl_cache, hid_t dxpl_id,
- const H5S_t *mem_space, const H5S_t *file_space,
- unsigned flags, hbool_t *use_par_opt_io, H5D_io_info_t *io_info)
+ const H5S_t
+#if !(defined H5_HAVE_PARALLEL || defined H5S_DEBUG)
+ UNUSED
+#endif /* H5_HAVE_PARALLEL */
+ *mem_space, const H5S_t
+#if !(defined H5_HAVE_PARALLEL || defined H5S_DEBUG)
+ UNUSED
+#endif /* H5_HAVE_PARALLEL */
+ *file_space, unsigned
+#ifndef H5_HAVE_PARALLEL
+ UNUSED
+#endif /* H5_HAVE_PARALLEL */
+ flags, hbool_t
+#ifndef H5_HAVE_PARALLEL
+ UNUSED
+#endif /* H5_HAVE_PARALLEL */
+ *use_par_opt_io, H5D_io_info_t *io_info)
{
#ifdef H5_HAVE_PARALLEL
htri_t opt; /* Flag whether a selection is optimizable */
#endif /* H5_HAVE_PARALLEL */
herr_t ret_value = SUCCEED; /* Return value */
+#if defined H5_HAVE_PARALLEL || defined H5S_DEBUG
FUNC_ENTER_NOAPI_NOINIT(H5D_ioinfo_init)
+#else /* defined H5_HAVE_PARALLEL || defined H5S_DEBUG */
+ FUNC_ENTER_NOAPI_NOINIT_NOFUNC(H5D_ioinfo_init)
+#endif /* defined H5_HAVE_PARALLEL || defined H5S_DEBUG */
/* check args */
HDassert(dset);
@@ -3325,7 +3350,6 @@ H5D_ioinfo_init(H5D_t *dset, const H5D_dxpl_cache_t *dxpl_cache, hid_t dxpl_id,
} /* end if */
else {
/* Indicate that the I/O will _NOT_ be parallel */
-
*use_par_opt_io=FALSE;
io_info->ops.read = H5D_select_read;
io_info->ops.write = H5D_select_write;
@@ -3343,6 +3367,8 @@ H5D_ioinfo_init(H5D_t *dset, const H5D_dxpl_cache_t *dxpl_cache, hid_t dxpl_id,
HGOTO_ERROR(H5E_DATASET, H5E_BADSELECT, FAIL, "can't set up selection statistics");
#endif /* H5S_DEBUG */
+#if defined H5_HAVE_PARALLEL || defined H5S_DEBUG
done:
+#endif /* H5_HAVE_PARALLEL || H5S_DEBUG */
FUNC_LEAVE_NOAPI(ret_value)
} /* end H5D_ioinfo_init() */